From e6899a597d86b9a5d35e876dbf895b150f65caf6 Mon Sep 17 00:00:00 2001 From: pgleeson Date: Fri, 8 Nov 2024 16:16:32 +0000 Subject: [PATCH 01/10] Put stages in Witvliet --- mkdocs.yml | 16 ++++++++-------- 1 file changed, 8 insertions(+), 8 deletions(-) diff --git a/mkdocs.yml b/mkdocs.yml index d22696b4e..a48099619 100644 --- a/mkdocs.yml +++ b/mkdocs.yml @@ -86,14 +86,14 @@ nav: - 'Cook et al. 2019 Herm': 'Cook2019Herm_data_graph.md' - 'Cook et al. 2019 Male': 'Cook2019Male_data_graph.md' - 'Cook et al. 2020': 'Cook2020_data_graph.md' - - 'Witvliet et al. 2021 - 1': 'Witvliet1_data_graph.md' - - 'Witvliet et al. 2021 - 2': 'Witvliet2_data_graph.md' - - 'Witvliet et al. 2021 - 3': 'Witvliet3_data_graph.md' - - 'Witvliet et al. 2021 - 4': 'Witvliet4_data_graph.md' - - 'Witvliet et al. 2021 - 5': 'Witvliet5_data_graph.md' - - 'Witvliet et al. 2021 - 6': 'Witvliet6_data_graph.md' - - 'Witvliet et al. 2021 - 7': 'Witvliet7_data_graph.md' - - 'Witvliet et al. 2021 - 8': 'Witvliet8_data_graph.md' + - 'Witvliet et al. 2021 1 (L1)': 'Witvliet1_data_graph.md' + - 'Witvliet et al. 2021 2 (L1)': 'Witvliet2_data_graph.md' + - 'Witvliet et al. 2021 3 (L1)': 'Witvliet3_data_graph.md' + - 'Witvliet et al. 2021 4 (L1)': 'Witvliet4_data_graph.md' + - 'Witvliet et al. 2021 5 (L2)': 'Witvliet5_data_graph.md' + - 'Witvliet et al. 2021 6 (L3)': 'Witvliet6_data_graph.md' + - 'Witvliet et al. 2021 7 (adult)': 'Witvliet7_data_graph.md' + - 'Witvliet et al. 2021 8 (adult)': 'Witvliet8_data_graph.md' - 'WormNeuroAtlas Anatomy': 'WormNeuroAtlas_data_graph.md' - 'Randi et al. 2023': 'Randi2023_data_graph.md' - 'Ripoll-Sánchez 2023 (short)': 'RipollSanchezShortRange_data.md' From e634ef4699b8d01cd7170801f19ab0be0a0190eb Mon Sep 17 00:00:00 2001 From: pgleeson Date: Wed, 13 Nov 2024 16:01:42 +0000 Subject: [PATCH 02/10] Adding Jarrell et al 2012 --- docs/Jarrell_2012.md | 13 +++++++++++++ mkdocs.yml | 1 + 2 files changed, 14 insertions(+) create mode 100644 docs/Jarrell_2012.md diff --git a/docs/Jarrell_2012.md b/docs/Jarrell_2012.md new file mode 100644 index 000000000..572aa2c25 --- /dev/null +++ b/docs/Jarrell_2012.md @@ -0,0 +1,13 @@ +## The Connectome of a Decision-Making Neural Network +_Travis A. Jarrell, Yi Wang, Adam E. Bloniarz, Christopher A. Brittin, Meng Xu, J. Nichol Thomson, Donna G. Albertson, David H. Hall and Scott W. Emmons_
+_[Science 337(6093):437-44](https://doi.org/10.1126/science.1221762)_
+_Published: Jul 27 2012_ + +**Summary** + +- Describes the wiring diagram of the posterior nervous system of the C. elegans adult male + +- Discussion of how the reconstructed circuit underlies a number of sex-specific behaviours + + + diff --git a/mkdocs.yml b/mkdocs.yml index a48099619..428d4d215 100644 --- a/mkdocs.yml +++ b/mkdocs.yml @@ -59,6 +59,7 @@ nav: - 'Hall & Russell 1991': 'Hall_1991.md' - 'Altun et al. 2009': 'Altun_2009.md' - 'Varshney et al. 2011': 'Varshney_2011.md' + - 'Jarrell et al. 2012': 'Jarrell_2012.md' - 'Serrano-Saiz et al. 2013': 'Serrano_2013.md' - 'Pereira et al. 2015': 'Pereira_2015.md' - 'Gendrel, Atlas & Hobert 2016': 'Gendrel_2016.md' From 5b52b076b09f454f4cb348a4ee91dfe4eaacc2bc Mon Sep 17 00:00:00 2001 From: pgleeson Date: Wed, 13 Nov 2024 16:02:25 +0000 Subject: [PATCH 03/10] Better cell info extraction --- cect/CellInfo.py | 29 +- cect/data/all_cell_info.csv | 525 ++++++++++++++++++------------------ 2 files changed, 282 insertions(+), 272 deletions(-) diff --git a/cect/CellInfo.py b/cect/CellInfo.py index 7689234aa..fc6963afe 100644 --- a/cect/CellInfo.py +++ b/cect/CellInfo.py @@ -147,15 +147,14 @@ def generate_cell_info_pages(connectomes): cell_info = '---\ntitle: "Cell: %s"\n---\n\n' % cell + cell_ref = ( + cell + if not ((cell.startswith("CA") or cell.startswith("CP")) and cell[2] == "0") + else "%s%s" % (cell[:2], cell[-1]) + ) # CA04 -> CA4 etc. + # TODO: investigate DX1, DX2, DX3, EF1, EF2, EF3 if is_any_neuron(cell) and "DX" not in cell and "EF" not in cell: - cell_ref = ( - cell - if not ( - (cell.startswith("CA") or cell.startswith("CP")) and cell[2] == "0" - ) - else "%s%s" % (cell[:2], cell[-1]) - ) # CA04 -> CA4 etc. acronym = cell_data[cell_ref][0] lineage = cell_data[cell_ref][1] desc = cell_data[cell_ref][2] @@ -186,15 +185,25 @@ def generate_cell_info_pages(connectomes): cell, get_cell_notes(cell), cell_data[cell_ref][0], - cell_data[cell_ref][1], - cell_data[cell_ref][2], + lineage, + desc, ] ) else: cell_info += '!!! question "**%s: %s**"\n\n' % (cell, get_cell_notes(cell)) + cc = cell_classification[cell] all_cell_info.append( - [cell, get_cell_notes(cell), cell_data[cell_ref][0], '""', '""', '""'] + [ + cell, + get_cell_notes(cell), + cell_data[cell_ref][0] + if cell_ref in cell_data + else "- To be added... - ", + get_cell_notes(cell), + "- To be added... - ", + cc[0].upper() + cc[1:], + ] ) cell_info += ( diff --git a/cect/data/all_cell_info.csv b/cect/data/all_cell_info.csv index 1554f973e..d5b55cf60 100644 --- a/cect/data/all_cell_info.csv +++ b/cect/data/all_cell_info.csv @@ -1,3 +1,4 @@ +Cell name,Type,Name details,Lineage,Classification ADAL,Layer 3 interneuron,Anterior Process from Deirid Commissure A Left,AB plapaaaapp,Ring interneuron ADAR,Layer 3 interneuron,Anterior Process from Deirid Commissure A Right,AB prapaaaapp,Ring interneuron ADEL,Mechanosensory,Anterior DEirid Neuron Left,AB plapaaaapa,"Anterior deirid, sensory neuron" @@ -300,224 +301,224 @@ VD6,Ventral cord motor neuron,Ventral D-type Motor Neuron 6,P5.app,"Ventral cord VD7,Ventral cord motor neuron,Ventral D-type Motor Neuron 7,P6.app,"Ventral cord motor neuron, innervates vent body muscles, reciprocal inhibitor" VD8,Ventral cord motor neuron,Ventral D-type Motor Neuron 8,P7.app,"Ventralcord motor neuron, innervates vent body muscles, reciprocal inhibitor" VD9,Ventral cord motor neuron,Ventral D-type Motor Neuron 9,P8.app,"Ventral cord motor neuron, innervates vent body muscles, reciprocal inhibitor" -MDL01,Head muscle,Ventral D-type Motor Neuron 9,,, -MDL02,Head muscle,Ventral D-type Motor Neuron 9,,, -MDL03,Head muscle,Ventral D-type Motor Neuron 9,,, -MDL04,Head muscle,Ventral D-type Motor Neuron 9,,, -MDL05,Head muscle,Ventral D-type Motor Neuron 9,,, -MDL06,Head muscle,Ventral D-type Motor Neuron 9,,, -MDL07,Head muscle,Ventral D-type Motor Neuron 9,,, -MDL08,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDL09,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDL10,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDL11,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDL12,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDL13,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDL14,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDL15,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDL16,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDL17,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDL18,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDL19,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDL20,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDL21,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDL22,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDL23,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDL24,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDR01,Head muscle,Ventral D-type Motor Neuron 9,,, -MDR02,Head muscle,Ventral D-type Motor Neuron 9,,, -MDR03,Head muscle,Ventral D-type Motor Neuron 9,,, -MDR04,Head muscle,Ventral D-type Motor Neuron 9,,, -MDR05,Head muscle,Ventral D-type Motor Neuron 9,,, -MDR06,Head muscle,Ventral D-type Motor Neuron 9,,, -MDR07,Head muscle,Ventral D-type Motor Neuron 9,,, -MDR08,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDR09,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDR10,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDR11,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDR12,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDR13,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDR14,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDR15,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDR16,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDR17,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDR18,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDR19,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDR20,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDR21,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDR22,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDR23,Main body muscle,Ventral D-type Motor Neuron 9,,, -MDR24,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVL01,Head muscle,Ventral D-type Motor Neuron 9,,, -MVL02,Head muscle,Ventral D-type Motor Neuron 9,,, -MVL03,Head muscle,Ventral D-type Motor Neuron 9,,, -MVL04,Head muscle,Ventral D-type Motor Neuron 9,,, -MVL05,Head muscle,Ventral D-type Motor Neuron 9,,, -MVL06,Head muscle,Ventral D-type Motor Neuron 9,,, -MVL07,Head muscle,Ventral D-type Motor Neuron 9,,, -MVL08,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVL09,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVL10,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVL11,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVL12,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVL13,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVL14,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVL15,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVL16,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVL17,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVL18,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVL19,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVL20,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVL21,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVL22,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVL23,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVR01,Head muscle,Ventral D-type Motor Neuron 9,,, -MVR02,Head muscle,Ventral D-type Motor Neuron 9,,, -MVR03,Head muscle,Ventral D-type Motor Neuron 9,,, -MVR04,Head muscle,Ventral D-type Motor Neuron 9,,, -MVR05,Head muscle,Ventral D-type Motor Neuron 9,,, -MVR06,Head muscle,Ventral D-type Motor Neuron 9,,, -MVR07,Head muscle,Ventral D-type Motor Neuron 9,,, -MVR08,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVR09,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVR10,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVR11,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVR12,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVR13,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVR14,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVR15,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVR16,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVR17,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVR18,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVR19,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVR20,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVR21,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVR22,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVR23,Main body muscle,Ventral D-type Motor Neuron 9,,, -MVR24,Main body muscle,Ventral D-type Motor Neuron 9,,, -pm1,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -pm3D,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -pm3VL,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -pm3VR,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -pm5D,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -pm5VR,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -pm5VL,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -pm7D,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -pm7VL,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -pm7VR,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -pm2D,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -pm2VL,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -pm2VR,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -pm4D,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -pm4VR,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -pm4VL,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -pm4_UNSPECIFIED,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -pm6D,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -pm6VR,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -pm6VL,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -pm8,Pharyngeal muscle,Ventral D-type Motor Neuron 9,,, -MVULVA,Vulval muscle,Ventral D-type Motor Neuron 9,,, -vm1AL,Vulval muscle,Ventral D-type Motor Neuron 9,,, -vm1PL,Vulval muscle,Ventral D-type Motor Neuron 9,,, -vm1PR,Vulval muscle,Ventral D-type Motor Neuron 9,,, -vm1AR,Vulval muscle,Ventral D-type Motor Neuron 9,,, -vm2AL,Vulval muscle,Ventral D-type Motor Neuron 9,,, -vm2AR,Vulval muscle,Ventral D-type Motor Neuron 9,,, -vm2PL,Vulval muscle,Ventral D-type Motor Neuron 9,,, -vm2PR,Vulval muscle,Ventral D-type Motor Neuron 9,,, -um2AL,Uterine muscle,Ventral D-type Motor Neuron 9,,, -um2AR,Uterine muscle,Ventral D-type Motor Neuron 9,,, -um1AL,Uterine muscle,Ventral D-type Motor Neuron 9,,, -um1AR,Uterine muscle,Ventral D-type Motor Neuron 9,,, -um1PL,Uterine muscle,Ventral D-type Motor Neuron 9,,, -um1PR,Uterine muscle,Ventral D-type Motor Neuron 9,,, -um2PL,Uterine muscle,Ventral D-type Motor Neuron 9,,, -um2PR,Uterine muscle,Ventral D-type Motor Neuron 9,,, -MANAL,Anal/sphincter muscle,Ventral D-type Motor Neuron 9,,, -mu_sph,Anal/sphincter muscle,Ventral D-type Motor Neuron 9,,, -mu_anal,Anal/sphincter muscle,Ventral D-type Motor Neuron 9,,, -dglL1,Diagonal muscle (male specific),Ventral D-type Motor Neuron 9,,, -dglL2,Diagonal muscle (male specific),Ventral D-type Motor Neuron 9,,, -dglL3,Diagonal muscle (male specific),Ventral D-type Motor Neuron 9,,, -dglL4,Diagonal muscle (male specific),Ventral D-type Motor Neuron 9,,, -dglL5,Diagonal muscle (male specific),Ventral D-type Motor Neuron 9,,, -dglL6,Diagonal muscle (male specific),Ventral D-type Motor Neuron 9,,, -dglL7,Diagonal muscle (male specific),Ventral D-type Motor Neuron 9,,, -dglR1,Diagonal muscle (male specific),Ventral D-type Motor Neuron 9,,, -dglR2,Diagonal muscle (male specific),Ventral D-type Motor Neuron 9,,, -dglR3,Diagonal muscle (male specific),Ventral D-type Motor Neuron 9,,, -dglR4,Diagonal muscle (male specific),Ventral D-type Motor Neuron 9,,, -dglR5,Diagonal muscle (male specific),Ventral D-type Motor Neuron 9,,, -dglR6,Diagonal muscle (male specific),Ventral D-type Motor Neuron 9,,, -dglR7,Diagonal muscle (male specific),Ventral D-type Motor Neuron 9,,, -dglR8,Diagonal muscle (male specific),Ventral D-type Motor Neuron 9,,, -aobL,Anterior oblique (male specific),Ventral D-type Motor Neuron 9,,, -aobR,Anterior oblique (male specific),Ventral D-type Motor Neuron 9,,, -pobL,Posterior oblique (male specific),Ventral D-type Motor Neuron 9,,, -pobR,Posterior oblique (male specific),Ventral D-type Motor Neuron 9,,, -gecL,Gubernacular erector (male specific),Ventral D-type Motor Neuron 9,,, -gecR,Gubernacular erector (male specific),Ventral D-type Motor Neuron 9,,, -grtL,Gubernacular retractor (male specific),Ventral D-type Motor Neuron 9,,, -grtR,Gubernacular retractor (male specific),Ventral D-type Motor Neuron 9,,, -cdlL,Caudal longitudinal muscle (male specific),Ventral D-type Motor Neuron 9,,, -cdlR,Caudal longitudinal muscle (male specific),Ventral D-type Motor Neuron 9,,, -ailL,Anterior inner longitudinal muscle (male specific),Ventral D-type Motor Neuron 9,,, -ailR,Anterior inner longitudinal muscle (male specific),Ventral D-type Motor Neuron 9,,, -pilL,Posterior inner longitudinal muscle (male specific),Ventral D-type Motor Neuron 9,,, -pilR,Posterior inner longitudinal muscle (male specific),Ventral D-type Motor Neuron 9,,, -polL,Posterior outer longitudinal muscle (male specific),Ventral D-type Motor Neuron 9,,, -polR,Posterior outer longitudinal muscle (male specific),Ventral D-type Motor Neuron 9,,, -dspL,Dorsal spicule protractor (male specific),Ventral D-type Motor Neuron 9,,, -dspR,Dorsal spicule protractor (male specific),Ventral D-type Motor Neuron 9,,, -vspL,Ventral spicule protractor (male specific),Ventral D-type Motor Neuron 9,,, -vspR,Ventral spicule protractor (male specific),Ventral D-type Motor Neuron 9,,, -dsrL,Dorsal spicule retractor (male specific),Ventral D-type Motor Neuron 9,,, -dsrR,Dorsal spicule retractor (male specific),Ventral D-type Motor Neuron 9,,, -vsrL,Ventral spicule retractor (male specific),Ventral D-type Motor Neuron 9,,, -vsrR,Ventral spicule retractor (male specific),Ventral D-type Motor Neuron 9,,, -mu_intL,Intestinal muscles,Ventral D-type Motor Neuron 9,,, -mu_intR,Intestinal muscles,Ventral D-type Motor Neuron 9,,, -BWM,Unspecified body wall muscle,Ventral D-type Motor Neuron 9,,, -GLRDL,GLR cell,Ventral D-type Motor Neuron 9,,, -GLRDR,GLR cell,Ventral D-type Motor Neuron 9,,, -GLRL,GLR cell,Ventral D-type Motor Neuron 9,,, -GLRR,GLR cell,Ventral D-type Motor Neuron 9,,, -GLRVL,GLR cell,Ventral D-type Motor Neuron 9,,, -GLRVR,GLR cell,Ventral D-type Motor Neuron 9,,, -CEPshDL,Sheath cell other than amphid sheath and phasmid,Ventral D-type Motor Neuron 9,,, -CEPshDR,Sheath cell other than amphid sheath and phasmid,Ventral D-type Motor Neuron 9,,, -CEPshVL,Sheath cell other than amphid sheath and phasmid,Ventral D-type Motor Neuron 9,,, -CEPshVR,Sheath cell other than amphid sheath and phasmid,Ventral D-type Motor Neuron 9,,, -mc1DL,Marginal cell of the pharynx,Ventral D-type Motor Neuron 9,,, -mc1DR,Marginal cell of the pharynx,Ventral D-type Motor Neuron 9,,, -mc1V,Marginal cell of the pharynx,Ventral D-type Motor Neuron 9,,, -mc2DL,Marginal cell of the pharynx,Ventral D-type Motor Neuron 9,,, -mc2DR,Marginal cell of the pharynx,Ventral D-type Motor Neuron 9,,, -mc2V,Marginal cell of the pharynx,Ventral D-type Motor Neuron 9,,, -mc3DL,Marginal cell of the pharynx,Ventral D-type Motor Neuron 9,,, -mc3DR,Marginal cell of the pharynx,Ventral D-type Motor Neuron 9,,, -mc3V,Marginal cell of the pharynx,Ventral D-type Motor Neuron 9,,, -e2DL,Pharyngeal epithelium,Ventral D-type Motor Neuron 9,,, -e2DR,Pharyngeal epithelium,Ventral D-type Motor Neuron 9,,, -e2D,Pharyngeal epithelium,Ventral D-type Motor Neuron 9,,, -e2V,Pharyngeal epithelium,Ventral D-type Motor Neuron 9,,, -e2VL,Pharyngeal epithelium,Ventral D-type Motor Neuron 9,,, -e2VR,Pharyngeal epithelium,Ventral D-type Motor Neuron 9,,, -e3D,Pharyngeal epithelium,Ventral D-type Motor Neuron 9,,, -e3VL,Pharyngeal epithelium,Ventral D-type Motor Neuron 9,,, -e3VR,Pharyngeal epithelium,Ventral D-type Motor Neuron 9,,, -g1AL,Pharyngeal glial cell,Ventral D-type Motor Neuron 9,,, -g1AR,Pharyngeal glial cell,Ventral D-type Motor Neuron 9,,, -g1p,Pharyngeal glial cell,Ventral D-type Motor Neuron 9,,, -g1P,Pharyngeal glial cell,Ventral D-type Motor Neuron 9,,, -g2L,Pharyngeal glial cell,Ventral D-type Motor Neuron 9,,, -g2R,Pharyngeal glial cell,Ventral D-type Motor Neuron 9,,, -bm,Pharyngeal basement membrane,Ventral D-type Motor Neuron 9,,, -exc_cell,Excretory cell,Ventral D-type Motor Neuron 9,,, -exc_gl,Excretory gland,Ventral D-type Motor Neuron 9,,, -hmc,Head mesodermal cell,Ventral D-type Motor Neuron 9,,, -hyp,Hypodermis,Ventral D-type Motor Neuron 9,,, -int,Intestine,Ventral D-type Motor Neuron 9,,, +MDL01,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MDL02,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MDL03,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MDL04,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MDL05,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MDL06,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MDL07,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MDL08,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDL09,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDL10,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDL11,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDL12,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDL13,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDL14,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDL15,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDL16,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDL17,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDL18,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDL19,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDL20,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDL21,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDL22,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDL23,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDL24,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDR01,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MDR02,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MDR03,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MDR04,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MDR05,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MDR06,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MDR07,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MDR08,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDR09,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDR10,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDR11,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDR12,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDR13,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDR14,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDR15,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDR16,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDR17,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDR18,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDR19,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDR20,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDR21,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDR22,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDR23,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MDR24,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVL01,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MVL02,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MVL03,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MVL04,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MVL05,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MVL06,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MVL07,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MVL08,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVL09,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVL10,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVL11,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVL12,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVL13,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVL14,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVL15,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVL16,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVL17,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVL18,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVL19,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVL20,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVL21,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVL22,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVL23,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVR01,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MVR02,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MVR03,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MVR04,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MVR05,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MVR06,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MVR07,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle +MVR08,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVR09,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVR10,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVR11,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVR12,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVR13,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVR14,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVR15,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVR16,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVR17,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVR18,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVR19,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVR20,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVR21,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVR22,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVR23,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +MVR24,Main body muscle,- To be added... - ,Main body muscle,- To be added... - ,Body wall muscle +pm1,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Odd numbered pharyngeal muscle +pm3D,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Odd numbered pharyngeal muscle +pm3VL,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Odd numbered pharyngeal muscle +pm3VR,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Odd numbered pharyngeal muscle +pm5D,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Odd numbered pharyngeal muscle +pm5VR,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Odd numbered pharyngeal muscle +pm5VL,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Odd numbered pharyngeal muscle +pm7D,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Odd numbered pharyngeal muscle +pm7VL,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Odd numbered pharyngeal muscle +pm7VR,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Odd numbered pharyngeal muscle +pm2D,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Even numbered pharyngeal muscle +pm2VL,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Even numbered pharyngeal muscle +pm2VR,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Even numbered pharyngeal muscle +pm4D,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Even numbered pharyngeal muscle +pm4VR,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Even numbered pharyngeal muscle +pm4VL,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Even numbered pharyngeal muscle +pm4_UNSPECIFIED,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Even numbered pharyngeal muscle +pm6D,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Even numbered pharyngeal muscle +pm6VR,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Even numbered pharyngeal muscle +pm6VL,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Even numbered pharyngeal muscle +pm8,Pharyngeal muscle,- To be added... - ,Pharyngeal muscle,- To be added... - ,Even numbered pharyngeal muscle +MVULVA,Vulval muscle,- To be added... - ,Vulval muscle,- To be added... - ,Vulval muscle +vm1AL,Vulval muscle,- To be added... - ,Vulval muscle,- To be added... - ,Vulval muscle +vm1PL,Vulval muscle,- To be added... - ,Vulval muscle,- To be added... - ,Vulval muscle +vm1PR,Vulval muscle,- To be added... - ,Vulval muscle,- To be added... - ,Vulval muscle +vm1AR,Vulval muscle,- To be added... - ,Vulval muscle,- To be added... - ,Vulval muscle +vm2AL,Vulval muscle,- To be added... - ,Vulval muscle,- To be added... - ,Vulval muscle +vm2AR,Vulval muscle,- To be added... - ,Vulval muscle,- To be added... - ,Vulval muscle +vm2PL,Vulval muscle,- To be added... - ,Vulval muscle,- To be added... - ,Vulval muscle +vm2PR,Vulval muscle,- To be added... - ,Vulval muscle,- To be added... - ,Vulval muscle +um2AL,Uterine muscle,- To be added... - ,Uterine muscle,- To be added... - ,Uterine muscle +um2AR,Uterine muscle,- To be added... - ,Uterine muscle,- To be added... - ,Uterine muscle +um1AL,Uterine muscle,- To be added... - ,Uterine muscle,- To be added... - ,Uterine muscle +um1AR,Uterine muscle,- To be added... - ,Uterine muscle,- To be added... - ,Uterine muscle +um1PL,Uterine muscle,- To be added... - ,Uterine muscle,- To be added... - ,Uterine muscle +um1PR,Uterine muscle,- To be added... - ,Uterine muscle,- To be added... - ,Uterine muscle +um2PL,Uterine muscle,- To be added... - ,Uterine muscle,- To be added... - ,Uterine muscle +um2PR,Uterine muscle,- To be added... - ,Uterine muscle,- To be added... - ,Uterine muscle +MANAL,Anal/sphincter muscle,- To be added... - ,Anal/sphincter muscle,- To be added... - ,Sphincter and anal depressor muscle +mu_sph,Anal/sphincter muscle,- To be added... - ,Anal/sphincter muscle,- To be added... - ,Sphincter and anal depressor muscle +mu_anal,Anal/sphincter muscle,- To be added... - ,Anal/sphincter muscle,- To be added... - ,Sphincter and anal depressor muscle +dglL1,Diagonal muscle (male specific),- To be added... - ,Diagonal muscle (male specific),- To be added... - ,Diagonal muscles +dglL2,Diagonal muscle (male specific),- To be added... - ,Diagonal muscle (male specific),- To be added... - ,Diagonal muscles +dglL3,Diagonal muscle (male specific),- To be added... - ,Diagonal muscle (male specific),- To be added... - ,Diagonal muscles +dglL4,Diagonal muscle (male specific),- To be added... - ,Diagonal muscle (male specific),- To be added... - ,Diagonal muscles +dglL5,Diagonal muscle (male specific),- To be added... - ,Diagonal muscle (male specific),- To be added... - ,Diagonal muscles +dglL6,Diagonal muscle (male specific),- To be added... - ,Diagonal muscle (male specific),- To be added... - ,Diagonal muscles +dglL7,Diagonal muscle (male specific),- To be added... - ,Diagonal muscle (male specific),- To be added... - ,Diagonal muscles +dglR1,Diagonal muscle (male specific),- To be added... - ,Diagonal muscle (male specific),- To be added... - ,Diagonal muscles +dglR2,Diagonal muscle (male specific),- To be added... - ,Diagonal muscle (male specific),- To be added... - ,Diagonal muscles +dglR3,Diagonal muscle (male specific),- To be added... - ,Diagonal muscle (male specific),- To be added... - ,Diagonal muscles +dglR4,Diagonal muscle (male specific),- To be added... - ,Diagonal muscle (male specific),- To be added... - ,Diagonal muscles +dglR5,Diagonal muscle (male specific),- To be added... - ,Diagonal muscle (male specific),- To be added... - ,Diagonal muscles +dglR6,Diagonal muscle (male specific),- To be added... - ,Diagonal muscle (male specific),- To be added... - ,Diagonal muscles +dglR7,Diagonal muscle (male specific),- To be added... - ,Diagonal muscle (male specific),- To be added... - ,Diagonal muscles +dglR8,Diagonal muscle (male specific),- To be added... - ,Diagonal muscle (male specific),- To be added... - ,Diagonal muscles +aobL,Anterior oblique (male specific),- To be added... - ,Anterior oblique (male specific),- To be added... - ,Anterior oblique muscles +aobR,Anterior oblique (male specific),- To be added... - ,Anterior oblique (male specific),- To be added... - ,Anterior oblique muscles +pobL,Posterior oblique (male specific),- To be added... - ,Posterior oblique (male specific),- To be added... - ,Posterior oblique muscles +pobR,Posterior oblique (male specific),- To be added... - ,Posterior oblique (male specific),- To be added... - ,Posterior oblique muscles +gecL,Gubernacular erector (male specific),- To be added... - ,Gubernacular erector (male specific),- To be added... - ,Gubernacular erector muscles +gecR,Gubernacular erector (male specific),- To be added... - ,Gubernacular erector (male specific),- To be added... - ,Gubernacular erector muscles +grtL,Gubernacular retractor (male specific),- To be added... - ,Gubernacular retractor (male specific),- To be added... - ,Gubernacular retractor muscles +grtR,Gubernacular retractor (male specific),- To be added... - ,Gubernacular retractor (male specific),- To be added... - ,Gubernacular retractor muscles +cdlL,Caudal longitudinal muscle (male specific),- To be added... - ,Caudal longitudinal muscle (male specific),- To be added... - ,Caudal inner longitudinal muscles +cdlR,Caudal longitudinal muscle (male specific),- To be added... - ,Caudal longitudinal muscle (male specific),- To be added... - ,Caudal inner longitudinal muscles +ailL,Anterior inner longitudinal muscle (male specific),- To be added... - ,Anterior inner longitudinal muscle (male specific),- To be added... - ,Anterior inner longitudinal muscles +ailR,Anterior inner longitudinal muscle (male specific),- To be added... - ,Anterior inner longitudinal muscle (male specific),- To be added... - ,Anterior inner longitudinal muscles +pilL,Posterior inner longitudinal muscle (male specific),- To be added... - ,Posterior inner longitudinal muscle (male specific),- To be added... - ,Posterior inner longitudinal muscles +pilR,Posterior inner longitudinal muscle (male specific),- To be added... - ,Posterior inner longitudinal muscle (male specific),- To be added... - ,Posterior inner longitudinal muscles +polL,Posterior outer longitudinal muscle (male specific),- To be added... - ,Posterior outer longitudinal muscle (male specific),- To be added... - ,Posterior outer longitudinal muscles +polR,Posterior outer longitudinal muscle (male specific),- To be added... - ,Posterior outer longitudinal muscle (male specific),- To be added... - ,Posterior outer longitudinal muscles +dspL,Dorsal spicule protractor (male specific),- To be added... - ,Dorsal spicule protractor (male specific),- To be added... - ,Spicule protractor muscles +dspR,Dorsal spicule protractor (male specific),- To be added... - ,Dorsal spicule protractor (male specific),- To be added... - ,Spicule protractor muscles +vspL,Ventral spicule protractor (male specific),- To be added... - ,Ventral spicule protractor (male specific),- To be added... - ,Spicule protractor muscles +vspR,Ventral spicule protractor (male specific),- To be added... - ,Ventral spicule protractor (male specific),- To be added... - ,Spicule protractor muscles +dsrL,Dorsal spicule retractor (male specific),- To be added... - ,Dorsal spicule retractor (male specific),- To be added... - ,Spicule retractor muscles +dsrR,Dorsal spicule retractor (male specific),- To be added... - ,Dorsal spicule retractor (male specific),- To be added... - ,Spicule retractor muscles +vsrL,Ventral spicule retractor (male specific),- To be added... - ,Ventral spicule retractor (male specific),- To be added... - ,Spicule retractor muscles +vsrR,Ventral spicule retractor (male specific),- To be added... - ,Ventral spicule retractor (male specific),- To be added... - ,Spicule retractor muscles +mu_intL,Intestinal muscles,- To be added... - ,Intestinal muscles,- To be added... - ,Intestinal muscle +mu_intR,Intestinal muscles,- To be added... - ,Intestinal muscles,- To be added... - ,Intestinal muscle +BWM,Unspecified body wall muscle,- To be added... - ,Unspecified body wall muscle,- To be added... - ,Body wall muscle +GLRDL,GLR cell,- To be added... - ,GLR cell,- To be added... - ,GLR cell +GLRDR,GLR cell,- To be added... - ,GLR cell,- To be added... - ,GLR cell +GLRL,GLR cell,- To be added... - ,GLR cell,- To be added... - ,GLR cell +GLRR,GLR cell,- To be added... - ,GLR cell,- To be added... - ,GLR cell +GLRVL,GLR cell,- To be added... - ,GLR cell,- To be added... - ,GLR cell +GLRVR,GLR cell,- To be added... - ,GLR cell,- To be added... - ,GLR cell +CEPshDL,Sheath cell other than amphid sheath and phasmid,- To be added... - ,Sheath cell other than amphid sheath and phasmid,- To be added... - ,Sheath cell other than amphid sheath and phasmid +CEPshDR,Sheath cell other than amphid sheath and phasmid,- To be added... - ,Sheath cell other than amphid sheath and phasmid,- To be added... - ,Sheath cell other than amphid sheath and phasmid +CEPshVL,Sheath cell other than amphid sheath and phasmid,- To be added... - ,Sheath cell other than amphid sheath and phasmid,- To be added... - ,Sheath cell other than amphid sheath and phasmid +CEPshVR,Sheath cell other than amphid sheath and phasmid,- To be added... - ,Sheath cell other than amphid sheath and phasmid,- To be added... - ,Sheath cell other than amphid sheath and phasmid +mc1DL,Marginal cell of the pharynx,- To be added... - ,Marginal cell of the pharynx,- To be added... - ,Marginal cells (mc) of the pharynx +mc1DR,Marginal cell of the pharynx,- To be added... - ,Marginal cell of the pharynx,- To be added... - ,Marginal cells (mc) of the pharynx +mc1V,Marginal cell of the pharynx,- To be added... - ,Marginal cell of the pharynx,- To be added... - ,Marginal cells (mc) of the pharynx +mc2DL,Marginal cell of the pharynx,- To be added... - ,Marginal cell of the pharynx,- To be added... - ,Marginal cells (mc) of the pharynx +mc2DR,Marginal cell of the pharynx,- To be added... - ,Marginal cell of the pharynx,- To be added... - ,Marginal cells (mc) of the pharynx +mc2V,Marginal cell of the pharynx,- To be added... - ,Marginal cell of the pharynx,- To be added... - ,Marginal cells (mc) of the pharynx +mc3DL,Marginal cell of the pharynx,- To be added... - ,Marginal cell of the pharynx,- To be added... - ,Marginal cells (mc) of the pharynx +mc3DR,Marginal cell of the pharynx,- To be added... - ,Marginal cell of the pharynx,- To be added... - ,Marginal cells (mc) of the pharynx +mc3V,Marginal cell of the pharynx,- To be added... - ,Marginal cell of the pharynx,- To be added... - ,Marginal cells (mc) of the pharynx +e2DL,Pharyngeal epithelium,- To be added... - ,Pharyngeal epithelium,- To be added... - ,Pharyngeal epithelium +e2DR,Pharyngeal epithelium,- To be added... - ,Pharyngeal epithelium,- To be added... - ,Pharyngeal epithelium +e2D,Pharyngeal epithelium,- To be added... - ,Pharyngeal epithelium,- To be added... - ,Pharyngeal epithelium +e2V,Pharyngeal epithelium,- To be added... - ,Pharyngeal epithelium,- To be added... - ,Pharyngeal epithelium +e2VL,Pharyngeal epithelium,- To be added... - ,Pharyngeal epithelium,- To be added... - ,Pharyngeal epithelium +e2VR,Pharyngeal epithelium,- To be added... - ,Pharyngeal epithelium,- To be added... - ,Pharyngeal epithelium +e3D,Pharyngeal epithelium,- To be added... - ,Pharyngeal epithelium,- To be added... - ,Pharyngeal epithelium +e3VL,Pharyngeal epithelium,- To be added... - ,Pharyngeal epithelium,- To be added... - ,Pharyngeal epithelium +e3VR,Pharyngeal epithelium,- To be added... - ,Pharyngeal epithelium,- To be added... - ,Pharyngeal epithelium +g1AL,Pharyngeal glial cell,- To be added... - ,Pharyngeal glial cell,- To be added... - ,Pharyngeal epithelium +g1AR,Pharyngeal glial cell,- To be added... - ,Pharyngeal glial cell,- To be added... - ,Pharyngeal epithelium +g1p,Pharyngeal glial cell,- To be added... - ,Pharyngeal glial cell,- To be added... - ,Pharyngeal epithelium +g1P,Pharyngeal glial cell,- To be added... - ,Pharyngeal glial cell,- To be added... - ,Pharyngeal epithelium +g2L,Pharyngeal glial cell,- To be added... - ,Pharyngeal glial cell,- To be added... - ,Pharyngeal epithelium +g2R,Pharyngeal glial cell,- To be added... - ,Pharyngeal glial cell,- To be added... - ,Pharyngeal epithelium +bm,Pharyngeal basement membrane,- To be added... - ,Pharyngeal basement membrane,- To be added... - ,Basement membrane +exc_cell,Excretory cell,- To be added... - ,Excretory cell,- To be added... - ,Excretory cell +exc_gl,Excretory gland,- To be added... - ,Excretory gland,- To be added... - ,Gland cell +hmc,Head mesodermal cell,- To be added... - ,Head mesodermal cell,- To be added... - ,Head mesodermal cell +hyp,Hypodermis,- To be added... - ,Hypodermis,- To be added... - ,Hypodermis +int,Intestine,- To be added... - ,Intestine,- To be added... - ,Intestinal cells MCML,Male head interneuron,Mystery Cell of the Male Left,AmsoL,Male specific interneuron MCMR,Male head interneuron,Mystery Cell of the Male Right,AmsoR,Male specific interneuron CEMDL,Male head sensory neuron,CEphalic Male Sensory Neuron Dorsal Left,AB plaaaaaap,"Male specific cephalic neurons (programmed cell death in hermaphrodite embryo) open to outside, possible function in male chemotaxis toward hermaphrodite" @@ -530,12 +531,12 @@ PVY,Male interneuron,Posterior Ventral Process Y,P11.paap,"Male specific interne PVZ,Male interneuron,Posterior Ventral Process Z,P10.ppppa,"Male specific motor neuron, cell body in pre-anal ganglion" DVE,Male interneuron,Dorsorectal Ventral Process E,B.ppap,"Male specific interneuron, cell body in dorsorectal ganglion" DVF,Male interneuron,Dorsorectal Ventral Process F,B.ppppa,"Male specific interneuron, cell body in dorsorectal ganglion" -DX1,Male interneuron,Dorsorectal Ventral Process F,,, -DX2,Male interneuron,Dorsorectal Ventral Process F,,, -DX3,Male interneuron,Dorsorectal Ventral Process F,,, -EF1,Male interneuron,Dorsorectal Ventral Process F,,, -EF2,Male interneuron,Dorsorectal Ventral Process F,,, -EF3,Male interneuron,Dorsorectal Ventral Process F,,, +DX1,Male interneuron,- To be added... - ,Male interneuron,- To be added... - ,Interneuron +DX2,Male interneuron,- To be added... - ,Male interneuron,- To be added... - ,Interneuron +DX3,Male interneuron,- To be added... - ,Male interneuron,- To be added... - ,Interneuron +EF1,Male interneuron,- To be added... - ,Male interneuron,- To be added... - ,Interneuron +EF2,Male interneuron,- To be added... - ,Male interneuron,- To be added... - ,Interneuron +EF3,Male interneuron,- To be added... - ,Male interneuron,- To be added... - ,Interneuron PDC,Male interneuron,Preanal Cell with Dorsal Process C,P11.papa,"Male specific interneuron, pre-anal ganglion" PGA,Male interneuron,Preanal Ganglion Cell A,P11.papp,"Male specific interneuron, pre-anal ganglion" CA01,Male interneuron,"C-type Neuron, Anterior Daughter after Division 1",P3.aapa,"Male specific cells, ventral cord, not constructed" @@ -608,41 +609,41 @@ SPDL,Male sensory neuron,SPicule Neuron D Left,B.alpapaa,"Male specific sensory SPDR,Male sensory neuron,SPicule Neuron D Right,B.arpapaa,"Male specific sensory neuron of male copulatory spicules, ciliated, open to outside at tip of spicule, cell body in right cloacal ganglion" SPVL,Male sensory neuron,SPicule Neuron V Left,B.al/raalda,"Male specific sensory neuron of male copulatory spicules, ciliated, open to outside at tip of spicule, cell body in left cloacal ganglion" SPVR,Male sensory neuron,SPicule Neuron V Right,B.al/raarda,"Male specific sensory neuron of male copulatory spicules, ciliated, open to outside at tip of spicule, cell body in right cloacal ganglion" -R1stL,Male ray structural cell,SPicule Neuron V Right,,, -R1stR,Male ray structural cell,SPicule Neuron V Right,,, -R2stL,Male ray structural cell,SPicule Neuron V Right,,, -R2stR,Male ray structural cell,SPicule Neuron V Right,,, -R3stL,Male ray structural cell,SPicule Neuron V Right,,, -R3stR,Male ray structural cell,SPicule Neuron V Right,,, -R4stL,Male ray structural cell,SPicule Neuron V Right,,, -R4stR,Male ray structural cell,SPicule Neuron V Right,,, -R5stL,Male ray structural cell,SPicule Neuron V Right,,, -R5stR,Male ray structural cell,SPicule Neuron V Right,,, -R6stL,Male ray structural cell,SPicule Neuron V Right,,, -R6stR,Male ray structural cell,SPicule Neuron V Right,,, -R7stL,Male ray structural cell,SPicule Neuron V Right,,, -R7stR,Male ray structural cell,SPicule Neuron V Right,,, -R8stL,Male ray structural cell,SPicule Neuron V Right,,, -R8stR,Male ray structural cell,SPicule Neuron V Right,,, -R9stL,Male ray structural cell,SPicule Neuron V Right,,, -R9stR,Male ray structural cell,SPicule Neuron V Right,,, -R1shL,Male ray structural cell,SPicule Neuron V Right,,, -R1shR,Male ray structural cell,SPicule Neuron V Right,,, -R2shL,Male ray structural cell,SPicule Neuron V Right,,, -R2shR,Male ray structural cell,SPicule Neuron V Right,,, -R3shL,Male ray structural cell,SPicule Neuron V Right,,, -R3shR,Male ray structural cell,SPicule Neuron V Right,,, -R4shL,Male ray structural cell,SPicule Neuron V Right,,, -R4shR,Male ray structural cell,SPicule Neuron V Right,,, -R5shL,Male ray structural cell,SPicule Neuron V Right,,, -R5shR,Male ray structural cell,SPicule Neuron V Right,,, -R6shL,Male ray structural cell,SPicule Neuron V Right,,, -R6shR,Male ray structural cell,SPicule Neuron V Right,,, -R7shL,Male ray structural cell,SPicule Neuron V Right,,, -R7shR,Male ray structural cell,SPicule Neuron V Right,,, -R8shL,Male ray structural cell,SPicule Neuron V Right,,, -R8shR,Male ray structural cell,SPicule Neuron V Right,,, -R9shL,Male ray structural cell,SPicule Neuron V Right,,, -R9shR,Male ray structural cell,SPicule Neuron V Right,,, -proctodeum,Proctodeum (male specific),SPicule Neuron V Right,,, -gonad,Gonad (male specific),SPicule Neuron V Right,,, +R1stL,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R1stR,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R2stL,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R2stR,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R3stL,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R3stR,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R4stL,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R4stR,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R5stL,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R5stR,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R6stL,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R6stR,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R7stL,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R7stR,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R8stL,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R8stR,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R9stL,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R9stR,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R1shL,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R1shR,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R2shL,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R2shR,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R3shL,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R3shR,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R4shL,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R4shR,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R5shL,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R5shR,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R6shL,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R6shR,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R7shL,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R7shR,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R8shL,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R8shR,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R9shL,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +R9shR,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell +proctodeum,Proctodeum (male specific),- To be added... - ,Proctodeum (male specific),- To be added... - ,Proctodeum +gonad,Gonad (male specific),- To be added... - ,Gonad (male specific),- To be added... - ,Vas deferens From 9e40ad7902b21ca409cde97b19c609ebbea8c23b Mon Sep 17 00:00:00 2001 From: pgleeson Date: Wed, 13 Nov 2024 16:03:50 +0000 Subject: [PATCH 04/10] Comment text updated --- cect/WhiteDataReader.py | 5 +---- cect/WormNeuroAtlasExtSynReader.py | 2 +- cect/WormNeuroAtlasFuncReader.py | 2 +- cect/WormNeuroAtlasMAReader.py | 2 +- cect/WormNeuroAtlasPepReader.py | 2 +- cect/WormNeuroAtlasReader.py | 2 +- 6 files changed, 6 insertions(+), 9 deletions(-) diff --git a/cect/WhiteDataReader.py b/cect/WhiteDataReader.py index 431648755..c12a7764e 100644 --- a/cect/WhiteDataReader.py +++ b/cect/WhiteDataReader.py @@ -2,10 +2,7 @@ ############################################################ -# A simple script to read the values in herm_full_edgelist.csv. - -# This is on of a number of interchangeable "Readers" which can -# be used to get connection data for c302 +# A script to read the values from White et al. 1986 ############################################################ diff --git a/cect/WormNeuroAtlasExtSynReader.py b/cect/WormNeuroAtlasExtSynReader.py index d19911770..bd6588d25 100644 --- a/cect/WormNeuroAtlasExtSynReader.py +++ b/cect/WormNeuroAtlasExtSynReader.py @@ -22,7 +22,7 @@ LOGGER = logging.getLogger(__name__) -READER_DESCRIPTION = """Data on extrasynaptic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**""" +READER_DESCRIPTION = """Data on extrasynaptic connectivity from the WormNeuroAtlas package""" class WormNeuroAtlasExtSynReader(ConnectomeDataset): diff --git a/cect/WormNeuroAtlasFuncReader.py b/cect/WormNeuroAtlasFuncReader.py index 5fdec60e8..c4bc4190d 100644 --- a/cect/WormNeuroAtlasFuncReader.py +++ b/cect/WormNeuroAtlasFuncReader.py @@ -20,7 +20,7 @@ LOGGER = logging.getLogger(__name__) -READER_DESCRIPTION = """Data on functional connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**""" +READER_DESCRIPTION = """Data on functional connectivity from the WormNeuroAtlas package""" FUNCTIONAL_SYN_TYPE = "Functional" FUNCTIONAL_SYN_CLASS = "Functional" diff --git a/cect/WormNeuroAtlasMAReader.py b/cect/WormNeuroAtlasMAReader.py index a63461a48..3c83069a6 100644 --- a/cect/WormNeuroAtlasMAReader.py +++ b/cect/WormNeuroAtlasMAReader.py @@ -13,7 +13,7 @@ LOGGER = logging.getLogger(__name__) -READER_DESCRIPTION = """Data on monoaminergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**""" +READER_DESCRIPTION = """Data on monoaminergic connectivity from the WormNeuroAtlas package""" def get_instance(): diff --git a/cect/WormNeuroAtlasPepReader.py b/cect/WormNeuroAtlasPepReader.py index c9359671f..8f85b8b0b 100644 --- a/cect/WormNeuroAtlasPepReader.py +++ b/cect/WormNeuroAtlasPepReader.py @@ -13,7 +13,7 @@ LOGGER = logging.getLogger(__name__) -READER_DESCRIPTION = """Data on peptidergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**""" +READER_DESCRIPTION = """Data on peptidergic connectivity from the WormNeuroAtlas package""" def get_instance(): diff --git a/cect/WormNeuroAtlasReader.py b/cect/WormNeuroAtlasReader.py index bdfb0ddd9..329f5babf 100644 --- a/cect/WormNeuroAtlasReader.py +++ b/cect/WormNeuroAtlasReader.py @@ -24,7 +24,7 @@ LOGGER = logging.getLogger(__name__) -READER_DESCRIPTION = """Data from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)** for neuronal connectivity""" +READER_DESCRIPTION = """Data from the WormNeuroAtlas package for neuronal connectivity""" def get_all_cells(watlas): From b4c9165851e5b0caf8f436f7bd5d2541b5650571 Mon Sep 17 00:00:00 2001 From: pgleeson Date: Wed, 13 Nov 2024 18:36:11 +0000 Subject: [PATCH 05/10] Initial Britin dataset --- .gitignore | 3 + cect/BrittinDataReader.py | 91 ++++++++++++++++++++++ cect/Comparison.py | 3 + cect/ConnectomeView.py | 23 +++--- cect/data/41586_2021_3284_MOESM5_ESM.xlsx | Bin 0 -> 129504 bytes docs/Brittin_2021.md | 28 ++++--- docs/api/cect/BrittinDataReader.md | 1 + 7 files changed, 128 insertions(+), 21 deletions(-) create mode 100644 cect/BrittinDataReader.py create mode 100644 cect/data/41586_2021_3284_MOESM5_ESM.xlsx create mode 100644 docs/api/cect/BrittinDataReader.md diff --git a/.gitignore b/.gitignore index fd2ddeb68..258a07c1a 100644 --- a/.gitignore +++ b/.gitignore @@ -669,3 +669,6 @@ __pycache__ /docs/vspR.md /docs/vsrL.md /docs/vsrR.md +/docs/Brittin*_data*.md +/docs/assets/Brittin2021* +/docs/*_Brittin2021_data*.md diff --git a/cect/BrittinDataReader.py b/cect/BrittinDataReader.py new file mode 100644 index 000000000..d76498470 --- /dev/null +++ b/cect/BrittinDataReader.py @@ -0,0 +1,91 @@ +# -*- coding: utf-8 -*- + +############################################################ + +# A script to read the values from Brittin et al 2021 + +############################################################ + + +from cect.ConnectomeReader import ConnectionInfo +from cect.ConnectomeReader import analyse_connections + +from cect.ConnectomeDataset import ConnectomeDataset +from cect.ConnectomeDataset import get_dataset_source_on_github + +import os +from openpyxl import load_workbook + +from cect import print_ + + +spreadsheet_location = os.path.dirname(os.path.abspath(__file__)) + "/data/" + +filename = "%s41586_2021_3284_MOESM5_ESM.xlsx" % spreadsheet_location + +READER_DESCRIPTION = ( + """Data extracted from %s for ... connectivity.""" + % get_dataset_source_on_github(filename.split("/")[-1]) +) + + +class BrittinDataReader(ConnectomeDataset): + """Reader for datasets from [Brittin et al. 2021](../../Brittin_2021.md)""" + + verbose = False + + def __init__(self, reference_graph): + ConnectomeDataset.__init__(self) + self.reference_graph = reference_graph + + cells, neuron_conns = self.read_data() + for conn in neuron_conns: + self.add_connection_info(conn) + + def read_data(self): + cells = [] + conns = [] + + wb = load_workbook(filename) + + sheet = wb.get_sheet_by_name(self.reference_graph) + + print_("Opened sheet %s in Excel file: %s" % (sheet, filename)) + print(dir(sheet)) + + for row in sheet.rows: + print(row[0].value) + if "cell_1" not in row[0].value: + delta = int(row[3].value) + if delta == 4: + pre = row[0].value + post = row[1].value + num = float(row[2].value) + syntype = "Contact" + synclass = "%s%s" % (self.reference_graph, row[3].value) + synclass = "Contact" + ci = ConnectionInfo(pre, post, num, syntype, synclass) + print("Adding %s" % ci) + conns.append(ci) + + if pre not in cells: + cells.append(pre) + if post not in cells: + cells.append(post) + + return cells, conns + + +def get_instance(): + return BrittinDataReader("M") + + +my_instance = get_instance() + +if __name__ == "__main__": + wdr = get_instance() + + cells, neuron_conns = wdr.read_data() + neurons2muscles, muscles, muscle_conns = wdr.read_muscle_data() + + analyse_connections(cells, neuron_conns, neurons2muscles, muscles, muscle_conns) diff --git a/cect/Comparison.py b/cect/Comparison.py index 78f5b1521..4c16ca31a 100644 --- a/cect/Comparison.py +++ b/cect/Comparison.py @@ -22,6 +22,7 @@ "Cook2019Herm": "Cook2019Herm_data", "Cook2019Male": "Cook2019Male_data", "Cook2020": "Cook2020_data", + "Brittin2021": "Brittin2021_data", "Witvliet1": "Witvliet1_data", "Witvliet2": "Witvliet2_data", "Witvliet3": "Witvliet3_data", @@ -169,6 +170,8 @@ def generate_comparison_page(quick: bool, color_table=True): readers["Cook2020"] = ["cect.Cook2020DataReader", "Cook_2020"] + readers["Brittin2021"] = ["cect.BrittinDataReader", "Brittin_2021"] + if not quick: readers["Witvliet1"] = ["cect.WitvlietDataReader1", "Witvliet_2021"] readers["Witvliet2"] = ["cect.WitvlietDataReader2", "Witvliet_2021"] diff --git a/cect/ConnectomeView.py b/cect/ConnectomeView.py index bb91bfc98..142edee22 100644 --- a/cect/ConnectomeView.py +++ b/cect/ConnectomeView.py @@ -115,8 +115,9 @@ def get_index_of_cell(self, cell): "Extrasynaptic": ALL_KNOWN_EXTRASYNAPTIC_CLASSES, } -EXC_INH_GJ_FUNC_SYN_CLASSES = copy.deepcopy(EXC_INH_GJ_SYN_CLASSES) -EXC_INH_GJ_FUNC_SYN_CLASSES["Functional"] = ["Functional"] +EXC_INH_GJ_FUNC_CONT_SYN_CLASSES = copy.deepcopy(EXC_INH_GJ_SYN_CLASSES) +EXC_INH_GJ_FUNC_CONT_SYN_CLASSES["Functional"] = ["Functional"] +EXC_INH_GJ_FUNC_CONT_SYN_CLASSES["Contact"] = ["Contact"] ALL_SYN_CLASSES = { "All synapses": [GENERIC_CHEM_SYN] @@ -125,6 +126,7 @@ def get_index_of_cell(self, cell): + [GENERIC_ELEC_SYN] + ALL_KNOWN_EXTRASYNAPTIC_CLASSES + ["Functional"] + + ["Contact"] } CHEM_GJ_SYN_CLASSES = { @@ -134,8 +136,9 @@ def get_index_of_cell(self, cell): "Extrasynaptic": EXC_INH_GJ_SYN_CLASSES["Extrasynaptic"], } -CHEM_GJ_FUNC_SYN_CLASSES = copy.deepcopy(CHEM_GJ_SYN_CLASSES) -CHEM_GJ_FUNC_SYN_CLASSES["Functional"] = ["Functional"] +CHEM_GJ_FUNC_CONT_SYN_CLASSES = copy.deepcopy(CHEM_GJ_SYN_CLASSES) +CHEM_GJ_FUNC_CONT_SYN_CLASSES["Functional"] = ["Functional"] +CHEM_GJ_FUNC_CONT_SYN_CLASSES["Contact"] = ["Contact"] RAW_VIEW = View( @@ -143,7 +146,7 @@ def get_index_of_cell(self, cell): "Raw Data", "All of the cells present in the original connectome dataset", [], - CHEM_GJ_FUNC_SYN_CLASSES, + CHEM_GJ_FUNC_CONT_SYN_CLASSES, only_show_existing_nodes=True, ) @@ -153,7 +156,7 @@ def get_index_of_cell(self, cell): "Neurons", "All 302 hermaphrodite neurons (whether present or not in the connectome dataset)", [], - EXC_INH_GJ_FUNC_SYN_CLASSES, + EXC_INH_GJ_FUNC_CONT_SYN_CLASSES, ) for cell in ( @@ -183,7 +186,7 @@ def get_index_of_cell(self, cell): "Pharynx", "Only the 20 neurons of the pharynx (whether present or not in the connectome dataset)", [], - EXC_INH_GJ_FUNC_SYN_CLASSES, + EXC_INH_GJ_FUNC_CONT_SYN_CLASSES, ) for cell in sorted(PHARYNGEAL_NEURONS): PHARYNX_VIEW.node_sets.append(NodeSet(cell, [cell], get_standard_color(cell))) @@ -194,7 +197,7 @@ def get_index_of_cell(self, cell): "Escape Response Circuit", "Escape Response Circuit from [Pirri & Alkema, 2013](https://pmc.ncbi.nlm.nih.gov/articles/PMC3437330/)", [], - EXC_INH_GJ_FUNC_SYN_CLASSES, + EXC_INH_GJ_FUNC_CONT_SYN_CLASSES, ) len_scale = 1 @@ -288,7 +291,7 @@ def get_index_of_cell(self, cell): "Social Network", "Hub and spoke circuit for social behavior as in Macosko et al. 2009", [], - EXC_INH_GJ_FUNC_SYN_CLASSES, + 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zcKWPzD4>He%)hLh@&2b3zW=h4HQ|tP6aWHc4Wj*JMOPi=zqX_B|Cg1&x3T=nDCpCF zTKV20`Wu(O8>7FhcrAXn@~chyx9Z;wsb8uh-@dE<-Jbf}z~4*iUk2(nfB61;f&I6I zKi3_<^g*Dp9Td?2T7~?r{^z;>clG%F-_(D;5~w~v2l$HYALE160UmlC0i*`~53{Gl AUjP6A literal 0 HcmV?d00001 diff --git a/docs/Brittin_2021.md b/docs/Brittin_2021.md index 471bb22f6..6f8367346 100644 --- a/docs/Brittin_2021.md +++ b/docs/Brittin_2021.md @@ -1,20 +1,26 @@ ## A multi-scale brain map derived from whole-brain volumetric reconstructions -_Brittin, C.A., Cook, S.J., Hall, D.H. et al_
_[Nature 591, 105–110](https://doi.org/10.1038/s41586-021-03284-x)_
+_Christopher A. Brittin, Steven J. Cook, David H. Hall, Scott W. Emmons & Netta Cohen_
_[Nature 591, 105–110](https://doi.org/10.1038/s41586-021-03284-x)_
_Published: 24 February 2021_ + +!!! example "Datasets" + + - **[Brittin et al. 2021](Brittin2021_data.md)** + **Summary** -- Data - - https://zenodo.org/records/4383277 - - https://zenodo.org/records/4383277 -- two complete volumetric reconstructions of the _C.elegans_ nerve ring from previously published EMs (White et al. 1986) + +- Two complete volumetric reconstructions of the _C.elegans_ nerve ring from previously published EMs (White et al. 1986) -adult -larval stage 4 (L4) worm -- two series of EMs span approx the same vol. with a length of 36 micrometres, starting in the anterior and ending in the ventral ganglia -- the reconstructiosn of these two nerve rings provide the first complete, nanoscale-resolution datasets of all neuronal membrane contacts of any neuropil. -- "contactome": the set of membrane contacts of the brain -- they define two neurons as immediate neighbours if the membranes along their neural processes are physically adjacent in at least one EM. -- to characterise synaptic pathways within a spatial contex, they integrated volumetric reconstructions with recent rescoring of synapses on the same L4 and adult worms (Cook et al) - -for validation and comparison with other datasets (White et al, (1986); Witvliet et al., (2021)) +- Two series of EMs span approx the same volume with a length of 36 micrometres, starting in the anterior and ending in the ventral ganglia +- The reconstructions of these two nerve rings provide the first complete, nanoscale-resolution datasets of all neuronal membrane contacts of any neuropil. +- Presents a "contactome": the set of membrane contacts of the brain +- They define two neurons as immediate neighbours if the membranes along their neural processes are physically adjacent in at least one EM. +- To characterise synaptic pathways within a spatial context, they integrated volumetric reconstructions with recent re-scoring of synapses on the same L4 and adult worms (Cook et al. 2019) for validation and comparison with other datasets (White et al, (1986); Witvliet et al., (2021)) + +Data released + - https://zenodo.org/records/4383277 + - https://zenodo.org/records/4383277 diff --git a/docs/api/cect/BrittinDataReader.md b/docs/api/cect/BrittinDataReader.md new file mode 100644 index 000000000..232760270 --- /dev/null +++ b/docs/api/cect/BrittinDataReader.md @@ -0,0 +1 @@ +::: cect.BrittinDataReader From 6bdbb8cf961456aabce639caa1d61e84c026aa04 Mon Sep 17 00:00:00 2001 From: pgleeson Date: Wed, 13 Nov 2024 18:36:36 +0000 Subject: [PATCH 06/10] Correctly scaling weights in graph --- cect/ConnectomeDataset.py | 32 +++++++++++++++++++++++++------- 1 file changed, 25 insertions(+), 7 deletions(-) diff --git a/cect/ConnectomeDataset.py b/cect/ConnectomeDataset.py index 80e874818..f44641c0f 100644 --- a/cect/ConnectomeDataset.py +++ b/cect/ConnectomeDataset.py @@ -418,6 +418,9 @@ def get_color_html(color, node): return fig + def _get_line_weight(self, weight, max_weight): + return 1 + (9 * weight / max_weight) + def to_plotly_graph_fig(self, synclass, view): conn_array = self.connections[synclass] @@ -427,6 +430,10 @@ def to_plotly_graph_fig(self, synclass, view): print_( f"Generating: {synclass} for {view.name}, {view.synclass_sets[synclass]}" ) + min_weight = conn_array.min() + max_weight = conn_array.max() + if verbose: + print_(f"Array \n{str(conn_array)} (weights {min_weight}->{max_weight})") DEFAULT_NODE_SIZE = 15 @@ -510,8 +517,14 @@ def get_node_size(node_set): from_node_set = view.get_node_set(self.nodes[dir_[0]]) conn_weight = conn_array[dir_[0], dir_[1]] - weight = min(10, math.sqrt(abs(conn_weight))) - opposite_dir_weight = math.sqrt(abs(conn_array[dir_[1], dir_[0]])) + + weight = self._get_line_weight( + abs(conn_weight), max_weight + ) # min(10, math.sqrt(abs(conn_weight))) + + opposite_dir_weight = self._get_line_weight( + abs(conn_array[dir_[1], dir_[0]]), max_weight + ) straight = edge[0] != edge[1] and ( gap_junction or opposite_dir_weight == 0 @@ -1046,10 +1059,12 @@ def connection_number_plot(self, synclass): # Todo: get better name from cect.ConnectomeView import RAW_VIEW as view # from cect.ConnectomeView import ESCAPE_VIEW as view + # from cect.ConnectomeView import SOCIAL_VIEW as view # from cect.ConnectomeView import SOCIAL_VIEW as view # from cect.ConnectomeView import COOK_FIG3_VIEW as view - from cect.White_whole import get_instance + # from cect.White_whole import get_instance + from cect.BrittinDataReader import get_instance # from cect.WitvlietDataReader8 import get_instance # from cect.Cook2019HermReader import get_instance @@ -1058,7 +1073,8 @@ def connection_number_plot(self, synclass): # Todo: get better name # synclass = "Acetylcholine" synclass = "Chemical" - synclass = "Electrical" + # synclass = "Electrical" + synclass = "Contact" # from cect.TestDataReader import get_instance cds = get_instance() @@ -1067,11 +1083,13 @@ def connection_number_plot(self, synclass): # Todo: get better name print(cds2.summary()) - print("Keys: %s" % view.synclass_sets.keys()) + print("Keys: %s, plotting: %s" % (view.synclass_sets.keys(), synclass)) + # fig = cds2.to_plotly_hive_plot_fig(list(view.synclass_sets.keys())[0], view) - # fig = cds2.to_plotly_graph_fig(synclass, view) - fig = cds2.to_plotly_matrix_fig(list(view.synclass_sets.keys())[0], view) + fig = cds2.to_plotly_graph_fig(synclass, view) + # fig = cds2.to_plotly_matrix_fig(list(view.synclass_sets.keys())[0], view) + # fig = cds2.to_plotly_matrix_fig(synclass, view) import plotly.io as pio From e83b3db8ce8c81c252aceb5945e454b38ba285b4 Mon Sep 17 00:00:00 2001 From: pgleeson Date: Thu, 14 Nov 2024 14:28:36 +0000 Subject: [PATCH 07/10] More Brittin --- cect/BrittinDataReader.py | 2 +- cect/ConnectomeDataset.py | 4 +++- docs/Bentley2016_MA_data.md | 4 ++-- docs/Bentley2016_MA_data_graph.md | 4 ++-- docs/Bentley2016_MA_data_hiveplot.md | 4 ++-- docs/Bentley2016_PEP_data.md | 4 ++-- docs/Bentley2016_PEP_data_graph.md | 4 ++-- docs/Bentley2016_PEP_data_hiveplot.md | 4 ++-- docs/api/summary.md | 1 + docs/index.md | 2 +- mkdocs.yml | 3 ++- 11 files changed, 20 insertions(+), 16 deletions(-) diff --git a/cect/BrittinDataReader.py b/cect/BrittinDataReader.py index d76498470..c7823571f 100644 --- a/cect/BrittinDataReader.py +++ b/cect/BrittinDataReader.py @@ -24,7 +24,7 @@ filename = "%s41586_2021_3284_MOESM5_ESM.xlsx" % spreadsheet_location READER_DESCRIPTION = ( - """Data extracted from %s for ... connectivity.""" + """Data extracted from %s for membrane contact information.""" % get_dataset_source_on_github(filename.split("/")[-1]) ) diff --git a/cect/ConnectomeDataset.py b/cect/ConnectomeDataset.py index f44641c0f..4c18f59ef 100644 --- a/cect/ConnectomeDataset.py +++ b/cect/ConnectomeDataset.py @@ -419,6 +419,8 @@ def get_color_html(color, node): return fig def _get_line_weight(self, weight, max_weight): + if weight == 0: + return 0 return 1 + (9 * weight / max_weight) def to_plotly_graph_fig(self, synclass, view): @@ -1072,7 +1074,7 @@ def connection_number_plot(self, synclass): # Todo: get better name synclass = "Chemical Exc" # synclass = "Acetylcholine" - synclass = "Chemical" + # synclass = "Chemical" # synclass = "Electrical" synclass = "Contact" # from cect.TestDataReader import get_instance diff --git a/docs/Bentley2016_MA_data.md b/docs/Bentley2016_MA_data.md index 59a76818a..8fcc44145 100644 --- a/docs/Bentley2016_MA_data.md +++ b/docs/Bentley2016_MA_data.md @@ -7,7 +7,7 @@ search: !!! example inline "Choose Dataset" - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 + White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Brittin2021 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 !!! tip "Choose View" @@ -22,7 +22,7 @@ search:

Dataset taken from Bentley et al. 2016 -

Data on monoaminergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasMAReader

+

Data on monoaminergic connectivity from the WormNeuroAtlas package.   Reader: WormNeuroAtlasMAReader

=== "Extrasynaptic" diff --git a/docs/Bentley2016_MA_data_graph.md b/docs/Bentley2016_MA_data_graph.md index a1ff35c0a..3d8e793b4 100644 --- a/docs/Bentley2016_MA_data_graph.md +++ b/docs/Bentley2016_MA_data_graph.md @@ -7,7 +7,7 @@ search: !!! example inline "Choose Dataset" - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 + White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Brittin2021 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 !!! tip "Choose View" @@ -22,7 +22,7 @@ search:

Dataset taken from Bentley et al. 2016 -

Data on monoaminergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasMAReader

+

Data on monoaminergic connectivity from the WormNeuroAtlas package.   Reader: WormNeuroAtlasMAReader

=== "Extrasynaptic" diff --git a/docs/Bentley2016_MA_data_hiveplot.md b/docs/Bentley2016_MA_data_hiveplot.md index 9fc7d5f8d..c8461157d 100644 --- a/docs/Bentley2016_MA_data_hiveplot.md +++ b/docs/Bentley2016_MA_data_hiveplot.md @@ -7,7 +7,7 @@ search: !!! example inline "Choose Dataset" - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 + White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Brittin2021 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 !!! tip "Choose View" @@ -22,7 +22,7 @@ search:

Dataset taken from Bentley et al. 2016 -

Data on monoaminergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasMAReader

+

Data on monoaminergic connectivity from the WormNeuroAtlas package.   Reader: WormNeuroAtlasMAReader

=== "Extrasynaptic" diff --git a/docs/Bentley2016_PEP_data.md b/docs/Bentley2016_PEP_data.md index 547f02695..e1fe3d45a 100644 --- a/docs/Bentley2016_PEP_data.md +++ b/docs/Bentley2016_PEP_data.md @@ -7,7 +7,7 @@ search: !!! example inline "Choose Dataset" - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 + White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Brittin2021 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 !!! tip "Choose View" @@ -22,7 +22,7 @@ search:

Dataset taken from Bentley et al. 2016 -

Data on peptidergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasPepReader

+

Data on peptidergic connectivity from the WormNeuroAtlas package.   Reader: WormNeuroAtlasPepReader

=== "Extrasynaptic" diff --git a/docs/Bentley2016_PEP_data_graph.md b/docs/Bentley2016_PEP_data_graph.md index 649927691..b9d87cfd4 100644 --- a/docs/Bentley2016_PEP_data_graph.md +++ b/docs/Bentley2016_PEP_data_graph.md @@ -7,7 +7,7 @@ search: !!! example inline "Choose Dataset" - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 + White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Brittin2021 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 !!! tip "Choose View" @@ -22,7 +22,7 @@ search:

Dataset taken from Bentley et al. 2016 -

Data on peptidergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasPepReader

+

Data on peptidergic connectivity from the WormNeuroAtlas package.   Reader: WormNeuroAtlasPepReader

=== "Extrasynaptic" diff --git a/docs/Bentley2016_PEP_data_hiveplot.md b/docs/Bentley2016_PEP_data_hiveplot.md index a1a84d2a0..56f9fb376 100644 --- a/docs/Bentley2016_PEP_data_hiveplot.md +++ b/docs/Bentley2016_PEP_data_hiveplot.md @@ -7,7 +7,7 @@ search: !!! example inline "Choose Dataset" - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 + White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Brittin2021 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 !!! tip "Choose View" @@ -22,7 +22,7 @@ search:

Dataset taken from Bentley et al. 2016 -

Data on peptidergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasPepReader

+

Data on peptidergic connectivity from the WormNeuroAtlas package.   Reader: WormNeuroAtlasPepReader

=== "Extrasynaptic" diff --git a/docs/api/summary.md b/docs/api/summary.md index 38ad1b84e..9fcd48de7 100644 --- a/docs/api/summary.md +++ b/docs/api/summary.md @@ -1,4 +1,5 @@ * [cect](cect/index.md) + * [BrittinDataReader](cect/BrittinDataReader.md) * [CellInfo](cect/CellInfo.md) * [Cells](cect/Cells.md) * [Comparison](cect/Comparison.md) diff --git a/docs/index.md b/docs/index.md index 3822ee876..2ed84b504 100644 --- a/docs/index.md +++ b/docs/index.md @@ -362,7 +362,7 @@ flowchart TD | **[Cook et al. 2019](Cook_2019.md)** | Anatomical | **[Cook 2019 Hermaphrodite](Cook2019Herm_data.md)** - **[Cook 2019 Male](Cook2019Male_data.md)** | | **[Cook et al. 2020](Cook_2020.md)** | Anatomical | **[Cook 2020](Cook2020_data.md)** | | [Fenyves et al. 2020](Fenyves_2020.md) | Functional | *Work in progress: [data](https://github.com/francescorandi/wormneuroatlas/blob/main/wormneuroatlas/data/journal.pcbi.1007974.s003.xlsx)* | -| [Brittin et al. 2021](Brittin_2021.md) | Anatomical | *Work in progress: [data](https://github.com/cabrittin/elegansbrainmap/tree/049a26a094e085bacc70f5b05ea04a007d00eb2c/data) - [parsed](https://github.com/cabrittin/parsetrakem2)* | +| **[Brittin et al. 2021](Brittin_2021.md)** | Anatomical | **[Brittin et al. 2021](Brittin2021_data.md)** | | [Taylor et al. 2021](Taylor_2021.md) | Gene Expression | *Work in progress: [data](https://github.com/cengenproject/CeNGEN_integrated_analysis_biorxiv_code)* | | [Yemini et al. 2021](Yemini_2021.md) | Gene Expression | *Work in progress: [data](https://zenodo.org/records/3906530)* | | **[Witvliet et al. 2021](Witvliet_2021.md)** | Developmental | **[Witvliet1](Witvliet1_data.md)** - **[Witvliet2](Witvliet2_data.md)** - **[Witvliet3](Witvliet3_data.md)** - **[Witvliet4](Witvliet4_data.md)** - **[Witvliet5](Witvliet5_data.md)** - **[Witvliet6](Witvliet6_data.md)** - **[Witvliet7](Witvliet7_data.md)** - **[Witvliet8](Witvliet8_data.md)**| diff --git a/mkdocs.yml b/mkdocs.yml index 428d4d215..e99f741a1 100644 --- a/mkdocs.yml +++ b/mkdocs.yml @@ -67,7 +67,7 @@ nav: - 'Cook et al. 2019': 'Cook_2019.md' - 'Cook et al. 2020': 'Cook_2020.md' - 'Fenyves et al. 2020': 'Fenyves_2020.md' - - 'Brittin et al. 2021': 'Brittin_2021.md' + - 'Brittin et al. 2021': 'Brittin_2021.md' - 'Taylor et al. 2021': 'Taylor_2021.md' - 'Yemini et al. 2021': 'Yemini_2021.md' - 'Witvliet et al. 2021': 'Witvliet_2021.md' @@ -87,6 +87,7 @@ nav: - 'Cook et al. 2019 Herm': 'Cook2019Herm_data_graph.md' - 'Cook et al. 2019 Male': 'Cook2019Male_data_graph.md' - 'Cook et al. 2020': 'Cook2020_data_graph.md' + - 'Brittin et al. 2021': 'Brittin2021_data_graph.md' - 'Witvliet et al. 2021 1 (L1)': 'Witvliet1_data_graph.md' - 'Witvliet et al. 2021 2 (L1)': 'Witvliet2_data_graph.md' - 'Witvliet et al. 2021 3 (L1)': 'Witvliet3_data_graph.md' From d70145df851439089548e6b8ca35da6de4f459f9 Mon Sep 17 00:00:00 2001 From: pgleeson Date: Thu, 14 Nov 2024 18:02:38 +0000 Subject: [PATCH 08/10] Fix weights; adds all cells in left menu --- cect/CellInfo.py | 54 ++-- cect/ConnectomeDataset.py | 14 +- mkdocs.yml | 647 +++++++++++++++++++++++++++++++++++++- 3 files changed, 691 insertions(+), 24 deletions(-) diff --git a/cect/CellInfo.py b/cect/CellInfo.py index fc6963afe..1c4ffa334 100644 --- a/cect/CellInfo.py +++ b/cect/CellInfo.py @@ -410,33 +410,51 @@ def generate_cell_info_pages(connectomes): if __name__ == "__main__": - from cect.White_whole import get_instance + import sys + + if "-i" in sys.argv: + from cect.Cells import PREFERRED_NEURON_NAMES_COOK + from cect.Cells import PREFERRED_MUSCLE_NAMES + from cect.Cells import KNOWN_OTHER_CELLS + + print(" - 'Individual neurons': ") + for cell in sorted(PREFERRED_NEURON_NAMES_COOK): + print(f" - '{cell}': '{cell}.md'") + print(" - 'Individual muscles': ") + for cell in sorted(PREFERRED_MUSCLE_NAMES): + print(f" - '{cell}': '{cell}.md'") + print(" - 'Other cells': ") + for cell in sorted(KNOWN_OTHER_CELLS): + print(f" - '{cell}': '{cell}.md'") - cds_white = get_instance() + else: + from cect.White_whole import get_instance - from cect.WitvlietDataReader8 import get_instance + cds_white = get_instance() - cds_w8 = get_instance() + from cect.WitvlietDataReader8 import get_instance - connectomes = {"White_whole": cds_white, "Witvliet8": cds_w8} + cds_w8 = get_instance() - from cect.Cook2019HermReader import get_instance + connectomes = {"White_whole": cds_white, "Witvliet8": cds_w8} - connectomes["Cook2019Herm"] = get_instance() + from cect.Cook2019HermReader import get_instance - from cect.Cook2019MaleReader import get_instance + connectomes["Cook2019Herm"] = get_instance() - connectomes["Cook2019Male"] = get_instance() + from cect.Cook2019MaleReader import get_instance - """ - from cect.WormNeuroAtlasMAReader import get_instance - connectomes['Bentley2016_MA'] = get_instance() + connectomes["Cook2019Male"] = get_instance() + + """ + from cect.WormNeuroAtlasMAReader import get_instance + connectomes['Bentley2016_MA'] = get_instance() - from cect.WormNeuroAtlasFuncReader import get_instance - connectomes['Randi2023'] = get_instance() + from cect.WormNeuroAtlasFuncReader import get_instance + connectomes['Randi2023'] = get_instance() - from cect.RipollSanchezShortRangeReader import get_instance - connectomes['RipollSanchezShortRange'] = get_instance() """ + from cect.RipollSanchezShortRangeReader import get_instance + connectomes['RipollSanchezShortRange'] = get_instance() """ - # load_individual_neuron_info() - generate_cell_info_pages(connectomes) + # load_individual_neuron_info() + generate_cell_info_pages(connectomes) diff --git a/cect/ConnectomeDataset.py b/cect/ConnectomeDataset.py index 4c18f59ef..51a603c02 100644 --- a/cect/ConnectomeDataset.py +++ b/cect/ConnectomeDataset.py @@ -418,9 +418,11 @@ def get_color_html(color, node): return fig - def _get_line_weight(self, weight, max_weight): + def _get_line_weight(self, weight, min_nonzero_weight, max_weight): if weight == 0: return 0 + if min_nonzero_weight == max_weight: + return 1 return 1 + (9 * weight / max_weight) def to_plotly_graph_fig(self, synclass, view): @@ -432,10 +434,12 @@ def to_plotly_graph_fig(self, synclass, view): print_( f"Generating: {synclass} for {view.name}, {view.synclass_sets[synclass]}" ) - min_weight = conn_array.min() + min_nonzero_weight = np.min(conn_array[np.nonzero(conn_array)]) max_weight = conn_array.max() if verbose: - print_(f"Array \n{str(conn_array)} (weights {min_weight}->{max_weight})") + print_( + f"Array \n{str(conn_array)} (weights 0 or {min_nonzero_weight}->{max_weight})" + ) DEFAULT_NODE_SIZE = 15 @@ -521,11 +525,11 @@ def get_node_size(node_set): conn_weight = conn_array[dir_[0], dir_[1]] weight = self._get_line_weight( - abs(conn_weight), max_weight + abs(conn_weight), min_nonzero_weight, max_weight ) # min(10, math.sqrt(abs(conn_weight))) opposite_dir_weight = self._get_line_weight( - abs(conn_array[dir_[1], dir_[0]]), max_weight + abs(conn_array[dir_[1], dir_[0]]), min_nonzero_weight, max_weight ) straight = edge[0] != edge[1] and ( diff --git a/mkdocs.yml b/mkdocs.yml index e99f741a1..db85ee2dc 100644 --- a/mkdocs.yml +++ b/mkdocs.yml @@ -104,12 +104,657 @@ nav: - 'Test': 'Test_data_graph.md' - Cells: - 'All C. elegans cells': 'Cells.md' - - 'Individual cells': + - 'Individual neurons': - 'ADAL': 'ADAL.md' + - 'ADAR': 'ADAR.md' + - 'ADEL': 'ADEL.md' + - 'ADER': 'ADER.md' + - 'ADFL': 'ADFL.md' + - 'ADFR': 'ADFR.md' + - 'ADLL': 'ADLL.md' + - 'ADLR': 'ADLR.md' + - 'AFDL': 'AFDL.md' + - 'AFDR': 'AFDR.md' + - 'AIAL': 'AIAL.md' + - 'AIAR': 'AIAR.md' + - 'AIBL': 'AIBL.md' + - 'AIBR': 'AIBR.md' + - 'AIML': 'AIML.md' + - 'AIMR': 'AIMR.md' + - 'AINL': 'AINL.md' + - 'AINR': 'AINR.md' + - 'AIYL': 'AIYL.md' + - 'AIYR': 'AIYR.md' + - 'AIZL': 'AIZL.md' + - 'AIZR': 'AIZR.md' + - 'ALA': 'ALA.md' + - 'ALML': 'ALML.md' + - 'ALMR': 'ALMR.md' + - 'ALNL': 'ALNL.md' + - 'ALNR': 'ALNR.md' + - 'AQR': 'AQR.md' + - 'AS1': 'AS1.md' + - 'AS10': 'AS10.md' + - 'AS11': 'AS11.md' + - 'AS2': 'AS2.md' + - 'AS3': 'AS3.md' + - 'AS4': 'AS4.md' + - 'AS5': 'AS5.md' + - 'AS6': 'AS6.md' + - 'AS7': 'AS7.md' + - 'AS8': 'AS8.md' + - 'AS9': 'AS9.md' + - 'ASEL': 'ASEL.md' + - 'ASER': 'ASER.md' + - 'ASGL': 'ASGL.md' + - 'ASGR': 'ASGR.md' + - 'ASHL': 'ASHL.md' + - 'ASHR': 'ASHR.md' + - 'ASIL': 'ASIL.md' + - 'ASIR': 'ASIR.md' + - 'ASJL': 'ASJL.md' + - 'ASJR': 'ASJR.md' + - 'ASKL': 'ASKL.md' + - 'ASKR': 'ASKR.md' + - 'AUAL': 'AUAL.md' + - 'AUAR': 'AUAR.md' - 'AVAL': 'AVAL.md' + - 'AVAR': 'AVAR.md' + - 'AVBL': 'AVBL.md' - 'AVBR': 'AVBR.md' + - 'AVDL': 'AVDL.md' + - 'AVDR': 'AVDR.md' + - 'AVEL': 'AVEL.md' + - 'AVER': 'AVER.md' + - 'AVFL': 'AVFL.md' + - 'AVFR': 'AVFR.md' + - 'AVG': 'AVG.md' + - 'AVHL': 'AVHL.md' + - 'AVHR': 'AVHR.md' + - 'AVJL': 'AVJL.md' + - 'AVJR': 'AVJR.md' + - 'AVKL': 'AVKL.md' + - 'AVKR': 'AVKR.md' + - 'AVL': 'AVL.md' + - 'AVM': 'AVM.md' + - 'AWAL': 'AWAL.md' + - 'AWAR': 'AWAR.md' + - 'AWBL': 'AWBL.md' + - 'AWBR': 'AWBR.md' + - 'AWCL': 'AWCL.md' + - 'AWCR': 'AWCR.md' + - 'BAGL': 'BAGL.md' + - 'BAGR': 'BAGR.md' + - 'BDUL': 'BDUL.md' + - 'BDUR': 'BDUR.md' + - 'CANL': 'CANL.md' + - 'CANR': 'CANR.md' + - 'CEPDL': 'CEPDL.md' + - 'CEPDR': 'CEPDR.md' + - 'CEPVL': 'CEPVL.md' + - 'CEPVR': 'CEPVR.md' + - 'DA1': 'DA1.md' + - 'DA2': 'DA2.md' + - 'DA3': 'DA3.md' + - 'DA4': 'DA4.md' + - 'DA5': 'DA5.md' + - 'DA6': 'DA6.md' + - 'DA7': 'DA7.md' + - 'DA8': 'DA8.md' + - 'DA9': 'DA9.md' + - 'DB1': 'DB1.md' + - 'DB2': 'DB2.md' + - 'DB3': 'DB3.md' + - 'DB4': 'DB4.md' + - 'DB5': 'DB5.md' + - 'DB6': 'DB6.md' + - 'DB7': 'DB7.md' + - 'DD1': 'DD1.md' + - 'DD2': 'DD2.md' + - 'DD3': 'DD3.md' + - 'DD4': 'DD4.md' + - 'DD5': 'DD5.md' + - 'DD6': 'DD6.md' + - 'DVA': 'DVA.md' + - 'DVB': 'DVB.md' + - 'DVC': 'DVC.md' + - 'FLPL': 'FLPL.md' + - 'FLPR': 'FLPR.md' + - 'HSNL': 'HSNL.md' + - 'HSNR': 'HSNR.md' - 'I1L': 'I1L.md' + - 'I1R': 'I1R.md' + - 'I2L': 'I2L.md' + - 'I2R': 'I2R.md' + - 'I3': 'I3.md' + - 'I4': 'I4.md' + - 'I5': 'I5.md' + - 'I6': 'I6.md' + - 'IL1DL': 'IL1DL.md' + - 'IL1DR': 'IL1DR.md' + - 'IL1L': 'IL1L.md' + - 'IL1R': 'IL1R.md' + - 'IL1VL': 'IL1VL.md' + - 'IL1VR': 'IL1VR.md' + - 'IL2DL': 'IL2DL.md' + - 'IL2DR': 'IL2DR.md' + - 'IL2L': 'IL2L.md' + - 'IL2R': 'IL2R.md' + - 'IL2VL': 'IL2VL.md' + - 'IL2VR': 'IL2VR.md' + - 'LUAL': 'LUAL.md' + - 'LUAR': 'LUAR.md' + - 'M1': 'M1.md' + - 'M2L': 'M2L.md' + - 'M2R': 'M2R.md' + - 'M3L': 'M3L.md' + - 'M3R': 'M3R.md' + - 'M4': 'M4.md' + - 'M5': 'M5.md' + - 'MCL': 'MCL.md' + - 'MCR': 'MCR.md' + - 'MI': 'MI.md' + - 'NSML': 'NSML.md' + - 'NSMR': 'NSMR.md' + - 'OLLL': 'OLLL.md' + - 'OLLR': 'OLLR.md' + - 'OLQDL': 'OLQDL.md' + - 'OLQDR': 'OLQDR.md' + - 'OLQVL': 'OLQVL.md' + - 'OLQVR': 'OLQVR.md' + - 'PDA': 'PDA.md' + - 'PDB': 'PDB.md' + - 'PDEL': 'PDEL.md' + - 'PDER': 'PDER.md' + - 'PHAL': 'PHAL.md' + - 'PHAR': 'PHAR.md' + - 'PHBL': 'PHBL.md' + - 'PHBR': 'PHBR.md' + - 'PHCL': 'PHCL.md' + - 'PHCR': 'PHCR.md' + - 'PLML': 'PLML.md' + - 'PLMR': 'PLMR.md' + - 'PLNL': 'PLNL.md' + - 'PLNR': 'PLNR.md' + - 'PQR': 'PQR.md' + - 'PVCL': 'PVCL.md' + - 'PVCR': 'PVCR.md' + - 'PVDL': 'PVDL.md' + - 'PVDR': 'PVDR.md' + - 'PVM': 'PVM.md' + - 'PVNL': 'PVNL.md' + - 'PVNR': 'PVNR.md' + - 'PVPL': 'PVPL.md' + - 'PVPR': 'PVPR.md' + - 'PVQL': 'PVQL.md' + - 'PVQR': 'PVQR.md' + - 'PVR': 'PVR.md' + - 'PVT': 'PVT.md' + - 'PVWL': 'PVWL.md' + - 'PVWR': 'PVWR.md' + - 'RIAL': 'RIAL.md' + - 'RIAR': 'RIAR.md' + - 'RIBL': 'RIBL.md' + - 'RIBR': 'RIBR.md' + - 'RICL': 'RICL.md' + - 'RICR': 'RICR.md' + - 'RID': 'RID.md' + - 'RIFL': 'RIFL.md' + - 'RIFR': 'RIFR.md' + - 'RIGL': 'RIGL.md' + - 'RIGR': 'RIGR.md' + - 'RIH': 'RIH.md' - 'RIML': 'RIML.md' + - 'RIMR': 'RIMR.md' + - 'RIPL': 'RIPL.md' + - 'RIPR': 'RIPR.md' + - 'RIR': 'RIR.md' + - 'RIS': 'RIS.md' + - 'RIVL': 'RIVL.md' + - 'RIVR': 'RIVR.md' + - 'RMDDL': 'RMDDL.md' + - 'RMDDR': 'RMDDR.md' + - 'RMDL': 'RMDL.md' + - 'RMDR': 'RMDR.md' + - 'RMDVL': 'RMDVL.md' + - 'RMDVR': 'RMDVR.md' + - 'RMED': 'RMED.md' + - 'RMEL': 'RMEL.md' + - 'RMER': 'RMER.md' + - 'RMEV': 'RMEV.md' + - 'RMFL': 'RMFL.md' + - 'RMFR': 'RMFR.md' + - 'RMGL': 'RMGL.md' + - 'RMGR': 'RMGR.md' + - 'RMHL': 'RMHL.md' + - 'RMHR': 'RMHR.md' + - 'SAADL': 'SAADL.md' + - 'SAADR': 'SAADR.md' + - 'SAAVL': 'SAAVL.md' + - 'SAAVR': 'SAAVR.md' + - 'SABD': 'SABD.md' + - 'SABVL': 'SABVL.md' + - 'SABVR': 'SABVR.md' + - 'SDQL': 'SDQL.md' + - 'SDQR': 'SDQR.md' + - 'SIADL': 'SIADL.md' + - 'SIADR': 'SIADR.md' + - 'SIAVL': 'SIAVL.md' + - 'SIAVR': 'SIAVR.md' + - 'SIBDL': 'SIBDL.md' + - 'SIBDR': 'SIBDR.md' + - 'SIBVL': 'SIBVL.md' + - 'SIBVR': 'SIBVR.md' + - 'SMBDL': 'SMBDL.md' + - 'SMBDR': 'SMBDR.md' + - 'SMBVL': 'SMBVL.md' + - 'SMBVR': 'SMBVR.md' + - 'SMDDL': 'SMDDL.md' + - 'SMDDR': 'SMDDR.md' + - 'SMDVL': 'SMDVL.md' + - 'SMDVR': 'SMDVR.md' + - 'URADL': 'URADL.md' + - 'URADR': 'URADR.md' + - 'URAVL': 'URAVL.md' + - 'URAVR': 'URAVR.md' + - 'URBL': 'URBL.md' + - 'URBR': 'URBR.md' + - 'URXL': 'URXL.md' + - 'URXR': 'URXR.md' + - 'URYDL': 'URYDL.md' + - 'URYDR': 'URYDR.md' + - 'URYVL': 'URYVL.md' + - 'URYVR': 'URYVR.md' + - 'VA1': 'VA1.md' + - 'VA10': 'VA10.md' + - 'VA11': 'VA11.md' + - 'VA12': 'VA12.md' + - 'VA2': 'VA2.md' + - 'VA3': 'VA3.md' + - 'VA4': 'VA4.md' + - 'VA5': 'VA5.md' + - 'VA6': 'VA6.md' + - 'VA7': 'VA7.md' + - 'VA8': 'VA8.md' + - 'VA9': 'VA9.md' + - 'VB1': 'VB1.md' + - 'VB10': 'VB10.md' + - 'VB11': 'VB11.md' + - 'VB2': 'VB2.md' + - 'VB3': 'VB3.md' + - 'VB4': 'VB4.md' + - 'VB5': 'VB5.md' + - 'VB6': 'VB6.md' + - 'VB7': 'VB7.md' + - 'VB8': 'VB8.md' + - 'VB9': 'VB9.md' + - 'VC1': 'VC1.md' + - 'VC2': 'VC2.md' + - 'VC3': 'VC3.md' + - 'VC4': 'VC4.md' + - 'VC5': 'VC5.md' + - 'VC6': 'VC6.md' + - 'VD1': 'VD1.md' + - 'VD10': 'VD10.md' + - 'VD11': 'VD11.md' + - 'VD12': 'VD12.md' + - 'VD13': 'VD13.md' + - 'VD2': 'VD2.md' + - 'VD3': 'VD3.md' + - 'VD4': 'VD4.md' + - 'VD5': 'VD5.md' + - 'VD6': 'VD6.md' + - 'VD7': 'VD7.md' + - 'VD8': 'VD8.md' + - 'VD9': 'VD9.md' + - 'Individual muscles': + - 'BWM': 'BWM.md' + - 'MANAL': 'MANAL.md' + - 'MDL01': 'MDL01.md' + - 'MDL02': 'MDL02.md' + - 'MDL03': 'MDL03.md' + - 'MDL04': 'MDL04.md' + - 'MDL05': 'MDL05.md' + - 'MDL06': 'MDL06.md' + - 'MDL07': 'MDL07.md' + - 'MDL08': 'MDL08.md' + - 'MDL09': 'MDL09.md' + - 'MDL10': 'MDL10.md' + - 'MDL11': 'MDL11.md' + - 'MDL12': 'MDL12.md' + - 'MDL13': 'MDL13.md' + - 'MDL14': 'MDL14.md' + - 'MDL15': 'MDL15.md' + - 'MDL16': 'MDL16.md' + - 'MDL17': 'MDL17.md' + - 'MDL18': 'MDL18.md' + - 'MDL19': 'MDL19.md' + - 'MDL20': 'MDL20.md' + - 'MDL21': 'MDL21.md' + - 'MDL22': 'MDL22.md' + - 'MDL23': 'MDL23.md' + - 'MDL24': 'MDL24.md' + - 'MDR01': 'MDR01.md' + - 'MDR02': 'MDR02.md' + - 'MDR03': 'MDR03.md' + - 'MDR04': 'MDR04.md' + - 'MDR05': 'MDR05.md' + - 'MDR06': 'MDR06.md' + - 'MDR07': 'MDR07.md' + - 'MDR08': 'MDR08.md' + - 'MDR09': 'MDR09.md' + - 'MDR10': 'MDR10.md' + - 'MDR11': 'MDR11.md' + - 'MDR12': 'MDR12.md' + - 'MDR13': 'MDR13.md' + - 'MDR14': 'MDR14.md' + - 'MDR15': 'MDR15.md' + - 'MDR16': 'MDR16.md' + - 'MDR17': 'MDR17.md' + - 'MDR18': 'MDR18.md' + - 'MDR19': 'MDR19.md' + - 'MDR20': 'MDR20.md' + - 'MDR21': 'MDR21.md' + - 'MDR22': 'MDR22.md' + - 'MDR23': 'MDR23.md' + - 'MDR24': 'MDR24.md' + - 'MVL01': 'MVL01.md' + - 'MVL02': 'MVL02.md' + - 'MVL03': 'MVL03.md' + - 'MVL04': 'MVL04.md' + - 'MVL05': 'MVL05.md' + - 'MVL06': 'MVL06.md' + - 'MVL07': 'MVL07.md' + - 'MVL08': 'MVL08.md' + - 'MVL09': 'MVL09.md' + - 'MVL10': 'MVL10.md' + - 'MVL11': 'MVL11.md' + - 'MVL12': 'MVL12.md' + - 'MVL13': 'MVL13.md' + - 'MVL14': 'MVL14.md' + - 'MVL15': 'MVL15.md' + - 'MVL16': 'MVL16.md' + - 'MVL17': 'MVL17.md' + - 'MVL18': 'MVL18.md' + - 'MVL19': 'MVL19.md' + - 'MVL20': 'MVL20.md' + - 'MVL21': 'MVL21.md' + - 'MVL22': 'MVL22.md' + - 'MVL23': 'MVL23.md' + - 'MVR01': 'MVR01.md' + - 'MVR02': 'MVR02.md' + - 'MVR03': 'MVR03.md' + - 'MVR04': 'MVR04.md' + - 'MVR05': 'MVR05.md' + - 'MVR06': 'MVR06.md' + - 'MVR07': 'MVR07.md' + - 'MVR08': 'MVR08.md' + - 'MVR09': 'MVR09.md' + - 'MVR10': 'MVR10.md' + - 'MVR11': 'MVR11.md' + - 'MVR12': 'MVR12.md' + - 'MVR13': 'MVR13.md' + - 'MVR14': 'MVR14.md' + - 'MVR15': 'MVR15.md' + - 'MVR16': 'MVR16.md' + - 'MVR17': 'MVR17.md' + - 'MVR18': 'MVR18.md' + - 'MVR19': 'MVR19.md' + - 'MVR20': 'MVR20.md' + - 'MVR21': 'MVR21.md' + - 'MVR22': 'MVR22.md' + - 'MVR23': 'MVR23.md' + - 'MVR24': 'MVR24.md' + - 'MVULVA': 'MVULVA.md' + - 'ailL': 'ailL.md' + - 'ailR': 'ailR.md' + - 'aobL': 'aobL.md' + - 'aobR': 'aobR.md' + - 'cdlL': 'cdlL.md' + - 'cdlR': 'cdlR.md' + - 'dglL1': 'dglL1.md' + - 'dglL2': 'dglL2.md' + - 'dglL3': 'dglL3.md' + - 'dglL4': 'dglL4.md' + - 'dglL5': 'dglL5.md' + - 'dglL6': 'dglL6.md' + - 'dglL7': 'dglL7.md' + - 'dglR1': 'dglR1.md' + - 'dglR2': 'dglR2.md' + - 'dglR3': 'dglR3.md' + - 'dglR4': 'dglR4.md' + - 'dglR5': 'dglR5.md' + - 'dglR6': 'dglR6.md' + - 'dglR7': 'dglR7.md' + - 'dglR8': 'dglR8.md' + - 'dspL': 'dspL.md' + - 'dspR': 'dspR.md' + - 'dsrL': 'dsrL.md' + - 'dsrR': 'dsrR.md' + - 'gecL': 'gecL.md' + - 'gecR': 'gecR.md' + - 'grtL': 'grtL.md' + - 'grtR': 'grtR.md' + - 'mu_anal': 'mu_anal.md' + - 'mu_intL': 'mu_intL.md' + - 'mu_intR': 'mu_intR.md' + - 'mu_sph': 'mu_sph.md' + - 'pilL': 'pilL.md' + - 'pilR': 'pilR.md' + - 'pm1': 'pm1.md' + - 'pm2D': 'pm2D.md' + - 'pm2VL': 'pm2VL.md' + - 'pm2VR': 'pm2VR.md' + - 'pm3D': 'pm3D.md' + - 'pm3VL': 'pm3VL.md' + - 'pm3VR': 'pm3VR.md' + - 'pm4D': 'pm4D.md' + - 'pm4VL': 'pm4VL.md' + - 'pm4VR': 'pm4VR.md' + - 'pm4_UNSPECIFIED': 'pm4_UNSPECIFIED.md' + - 'pm5D': 'pm5D.md' + - 'pm5VL': 'pm5VL.md' + - 'pm5VR': 'pm5VR.md' + - 'pm6D': 'pm6D.md' + - 'pm6VL': 'pm6VL.md' + - 'pm6VR': 'pm6VR.md' + - 'pm7D': 'pm7D.md' + - 'pm7VL': 'pm7VL.md' + - 'pm7VR': 'pm7VR.md' + - 'pm8': 'pm8.md' + - 'pobL': 'pobL.md' + - 'pobR': 'pobR.md' + - 'polL': 'polL.md' + - 'polR': 'polR.md' + - 'um1AL': 'um1AL.md' + - 'um1AR': 'um1AR.md' + - 'um1PL': 'um1PL.md' + - 'um1PR': 'um1PR.md' + - 'um2AL': 'um2AL.md' + - 'um2AR': 'um2AR.md' + - 'um2PL': 'um2PL.md' + - 'um2PR': 'um2PR.md' + - 'vm1AL': 'vm1AL.md' + - 'vm1AR': 'vm1AR.md' + - 'vm1PL': 'vm1PL.md' + - 'vm1PR': 'vm1PR.md' + - 'vm2AL': 'vm2AL.md' + - 'vm2AR': 'vm2AR.md' + - 'vm2PL': 'vm2PL.md' + - 'vm2PR': 'vm2PR.md' + - 'vspL': 'vspL.md' + - 'vspR': 'vspR.md' + - 'vsrL': 'vsrL.md' + - 'vsrR': 'vsrR.md' + - 'Other cells': + - 'CA01': 'CA01.md' + - 'CA02': 'CA02.md' + - 'CA03': 'CA03.md' + - 'CA04': 'CA04.md' + - 'CA05': 'CA05.md' + - 'CA06': 'CA06.md' + - 'CA07': 'CA07.md' + - 'CA08': 'CA08.md' + - 'CA09': 'CA09.md' + - 'CEMDL': 'CEMDL.md' + - 'CEMDR': 'CEMDR.md' + - 'CEMVL': 'CEMVL.md' + - 'CEMVR': 'CEMVR.md' + - 'CEPshDL': 'CEPshDL.md' + - 'CEPshDR': 'CEPshDR.md' + - 'CEPshVL': 'CEPshVL.md' + - 'CEPshVR': 'CEPshVR.md' + - 'CP01': 'CP01.md' + - 'CP02': 'CP02.md' + - 'CP03': 'CP03.md' + - 'CP04': 'CP04.md' + - 'CP05': 'CP05.md' + - 'CP06': 'CP06.md' + - 'CP07': 'CP07.md' + - 'CP08': 'CP08.md' + - 'CP09': 'CP09.md' + - 'DVE': 'DVE.md' + - 'DVF': 'DVF.md' + - 'DX1': 'DX1.md' + - 'DX2': 'DX2.md' + - 'DX3': 'DX3.md' + - 'EF1': 'EF1.md' + - 'EF2': 'EF2.md' + - 'EF3': 'EF3.md' + - 'GLRDL': 'GLRDL.md' + - 'GLRDR': 'GLRDR.md' + - 'GLRL': 'GLRL.md' + - 'GLRR': 'GLRR.md' + - 'GLRVL': 'GLRVL.md' + - 'GLRVR': 'GLRVR.md' + - 'HOA': 'HOA.md' + - 'HOB': 'HOB.md' + - 'MCML': 'MCML.md' + - 'MCMR': 'MCMR.md' + - 'PCAL': 'PCAL.md' + - 'PCAR': 'PCAR.md' + - 'PCBL': 'PCBL.md' + - 'PCBR': 'PCBR.md' + - 'PCCL': 'PCCL.md' + - 'PCCR': 'PCCR.md' + - 'PDC': 'PDC.md' + - 'PGA': 'PGA.md' + - 'PHDL': 'PHDL.md' + - 'PHDR': 'PHDR.md' + - 'PVV': 'PVV.md' + - 'PVX': 'PVX.md' + - 'PVY': 'PVY.md' + - 'PVZ': 'PVZ.md' + - 'R1AL': 'R1AL.md' + - 'R1AR': 'R1AR.md' + - 'R1BL': 'R1BL.md' + - 'R1BR': 'R1BR.md' + - 'R1shL': 'R1shL.md' + - 'R1shR': 'R1shR.md' + - 'R1stL': 'R1stL.md' + - 'R1stR': 'R1stR.md' + - 'R2AL': 'R2AL.md' + - 'R2AR': 'R2AR.md' + - 'R2BL': 'R2BL.md' + - 'R2BR': 'R2BR.md' + - 'R2shL': 'R2shL.md' + - 'R2shR': 'R2shR.md' + - 'R2stL': 'R2stL.md' + - 'R2stR': 'R2stR.md' + - 'R3AL': 'R3AL.md' + - 'R3AR': 'R3AR.md' + - 'R3BL': 'R3BL.md' + - 'R3BR': 'R3BR.md' + - 'R3shL': 'R3shL.md' + - 'R3shR': 'R3shR.md' + - 'R3stL': 'R3stL.md' + - 'R3stR': 'R3stR.md' + - 'R4AL': 'R4AL.md' + - 'R4AR': 'R4AR.md' + - 'R4BL': 'R4BL.md' + - 'R4BR': 'R4BR.md' + - 'R4shL': 'R4shL.md' + - 'R4shR': 'R4shR.md' + - 'R4stL': 'R4stL.md' + - 'R4stR': 'R4stR.md' + - 'R5AL': 'R5AL.md' + - 'R5AR': 'R5AR.md' + - 'R5BL': 'R5BL.md' + - 'R5BR': 'R5BR.md' + - 'R5shL': 'R5shL.md' + - 'R5shR': 'R5shR.md' + - 'R5stL': 'R5stL.md' + - 'R5stR': 'R5stR.md' + - 'R6AL': 'R6AL.md' + - 'R6AR': 'R6AR.md' + - 'R6BL': 'R6BL.md' + - 'R6BR': 'R6BR.md' + - 'R6shL': 'R6shL.md' + - 'R6shR': 'R6shR.md' + - 'R6stL': 'R6stL.md' + - 'R6stR': 'R6stR.md' + - 'R7AL': 'R7AL.md' + - 'R7AR': 'R7AR.md' + - 'R7BL': 'R7BL.md' + - 'R7BR': 'R7BR.md' + - 'R7shL': 'R7shL.md' + - 'R7shR': 'R7shR.md' + - 'R7stL': 'R7stL.md' + - 'R7stR': 'R7stR.md' + - 'R8AL': 'R8AL.md' + - 'R8AR': 'R8AR.md' + - 'R8BL': 'R8BL.md' + - 'R8BR': 'R8BR.md' + - 'R8shL': 'R8shL.md' + - 'R8shR': 'R8shR.md' + - 'R8stL': 'R8stL.md' + - 'R8stR': 'R8stR.md' + - 'R9AL': 'R9AL.md' + - 'R9AR': 'R9AR.md' + - 'R9BL': 'R9BL.md' + - 'R9BR': 'R9BR.md' + - 'R9shL': 'R9shL.md' + - 'R9shR': 'R9shR.md' + - 'R9stL': 'R9stL.md' + - 'R9stR': 'R9stR.md' + - 'SPCL': 'SPCL.md' + - 'SPCR': 'SPCR.md' + - 'SPDL': 'SPDL.md' + - 'SPDR': 'SPDR.md' + - 'SPVL': 'SPVL.md' + - 'SPVR': 'SPVR.md' + - 'bm': 'bm.md' + - 'e2D': 'e2D.md' + - 'e2DL': 'e2DL.md' + - 'e2DR': 'e2DR.md' + - 'e2V': 'e2V.md' + - 'e2VL': 'e2VL.md' + - 'e2VR': 'e2VR.md' + - 'e3D': 'e3D.md' + - 'e3VL': 'e3VL.md' + - 'e3VR': 'e3VR.md' + - 'exc_cell': 'exc_cell.md' + - 'exc_gl': 'exc_gl.md' + - 'g1AL': 'g1AL.md' + - 'g1AR': 'g1AR.md' + - 'g1P': 'g1P.md' + - 'g1p': 'g1p.md' + - 'g2L': 'g2L.md' + - 'g2R': 'g2R.md' + - 'gonad': 'gonad.md' + - 'hmc': 'hmc.md' + - 'hyp': 'hyp.md' + - 'int': 'int.md' + - 'mc1DL': 'mc1DL.md' + - 'mc1DR': 'mc1DR.md' + - 'mc1V': 'mc1V.md' + - 'mc2DL': 'mc2DL.md' + - 'mc2DR': 'mc2DR.md' + - 'mc2V': 'mc2V.md' + - 'mc3DL': 'mc3DL.md' + - 'mc3DR': 'mc3DR.md' + - 'mc3V': 'mc3V.md' + - 'proctodeum': 'proctodeum.md' - Python package: - 'Installation': 'Python.md' - 'API Reference': "api/summary/" From 1e51787f8cf255a729b0c3df48e2dc209fd0f14c Mon Sep 17 00:00:00 2001 From: pgleeson Date: Fri, 15 Nov 2024 12:10:11 +0000 Subject: [PATCH 09/10] More clarity in names of groups, ALL_NON_NEURON_MUSCLE_CELLS etc. --- cect/CellInfo.py | 10 +- cect/Cells.py | 32 ++-- cect/ConnectomeView.py | 9 +- cect/__init__.py | 2 + cect/data/all_cell_info.csv | 180 ++++++++++----------- mkdocs.yml | 312 ++++++++++++++++++------------------ setup.cfg | 2 +- 7 files changed, 283 insertions(+), 264 deletions(-) diff --git a/cect/CellInfo.py b/cect/CellInfo.py index 1c4ffa334..c486c4c77 100644 --- a/cect/CellInfo.py +++ b/cect/CellInfo.py @@ -413,18 +413,18 @@ def generate_cell_info_pages(connectomes): import sys if "-i" in sys.argv: - from cect.Cells import PREFERRED_NEURON_NAMES_COOK + from cect.Cells import ALL_PREFERRED_NEURON_NAMES from cect.Cells import PREFERRED_MUSCLE_NAMES - from cect.Cells import KNOWN_OTHER_CELLS + from cect.Cells import ALL_NON_NEURON_MUSCLE_CELLS print(" - 'Individual neurons': ") - for cell in sorted(PREFERRED_NEURON_NAMES_COOK): + for cell in sorted(ALL_PREFERRED_NEURON_NAMES): print(f" - '{cell}': '{cell}.md'") print(" - 'Individual muscles': ") - for cell in sorted(PREFERRED_MUSCLE_NAMES): + for cell in sorted(PREFERRED_MUSCLE_NAMES, key=lambda v: v.upper()): print(f" - '{cell}': '{cell}.md'") print(" - 'Other cells': ") - for cell in sorted(KNOWN_OTHER_CELLS): + for cell in sorted(ALL_NON_NEURON_MUSCLE_CELLS, key=lambda v: v.upper()): print(f" - '{cell}': '{cell}.md'") else: diff --git a/cect/Cells.py b/cect/Cells.py index deba25ce5..8b09100b8 100644 --- a/cect/Cells.py +++ b/cect/Cells.py @@ -668,7 +668,7 @@ def get_cell_notes(cell): MOTORNEURONS_COOK = MOTORNEURONS_NONPHARYNGEAL_COOK + PHARYNGEAL_MOTORNEURONS -PREFERRED_NEURON_NAMES_COOK = ( +PREFERRED_HERM_NEURON_NAMES_COOK = ( INTERNEURONS_COOK + SENSORY_NEURONS_COOK + MOTORNEURONS_COOK @@ -676,6 +676,7 @@ def get_cell_notes(cell): + UNKNOWN_FUNCTION_NEURONS ) +ALL_NEURON_NAMES_COOK = PREFERRED_HERM_NEURON_NAMES_COOK + MALE_SPECIFIC_NEURONS COOK_GROUPING_1 = { "Pharyngeal neurons": PHARYNGEAL_NEURONS, @@ -991,13 +992,13 @@ def get_cell_notes(cell): ] for n in PREFERRED_HERM_NEURON_NAMES: - assert n in PREFERRED_NEURON_NAMES_COOK + assert n in PREFERRED_HERM_NEURON_NAMES_COOK -for n in PREFERRED_NEURON_NAMES_COOK: +for n in PREFERRED_HERM_NEURON_NAMES_COOK: assert n in PREFERRED_HERM_NEURON_NAMES -assert len(PREFERRED_NEURON_NAMES_COOK) == len(PREFERRED_HERM_NEURON_NAMES) -assert len(PREFERRED_NEURON_NAMES_COOK) == 302 +assert len(PREFERRED_HERM_NEURON_NAMES_COOK) == len(PREFERRED_HERM_NEURON_NAMES) +assert len(PREFERRED_HERM_NEURON_NAMES_COOK) == 302 BODY_WALL_MUSCLE_NAMES = [ "MDL01", @@ -1447,9 +1448,8 @@ def get_cell_notes(cell): cell_notes["int"] = "intestine" -KNOWN_OTHER_CELLS_COOK_19 = ( - [] - + GLIAL_CELLS +KNOWN_HERM_NON_NEURON_MUSCLE_CELLS_COOK_19 = ( + GLIAL_CELLS + PHARYNGEAL_MARGINAL_CELLS + PHARYNGEAL_EPITHELIUM + PHARYNGEAL_GLIAL_CELL @@ -1461,15 +1461,24 @@ def get_cell_notes(cell): + INTESTINE ) -COOK_GROUPING_1["Other cells"] = list(KNOWN_OTHER_CELLS_COOK_19) +COOK_GROUPING_1["Other cells"] = list(KNOWN_HERM_NON_NEURON_MUSCLE_CELLS_COOK_19) +""" KNOWN_OTHER_CELLS = KNOWN_OTHER_CELLS_COOK_19 + KNOWN_OTHER_CELLS += ( MALE_SPECIFIC_NEURONS + MALE_RAY_STRUCTURAL_CELLS + PROCTODEUM_CELL_MALE + GONAD_CELL_MALE +)""" + +ALL_NON_NEURON_MUSCLE_CELLS = ( + KNOWN_HERM_NON_NEURON_MUSCLE_CELLS_COOK_19 + + MALE_RAY_STRUCTURAL_CELLS + + PROCTODEUM_CELL_MALE + + GONAD_CELL_MALE ) COOK_GROUPING_1["Male specific neurons"] = MALE_SPECIFIC_NEURONS @@ -1480,8 +1489,11 @@ def get_cell_notes(cell): MALE_RAY_STRUCTURAL_CELLS + PROCTODEUM_CELL_MALE + GONAD_CELL_MALE ) +ALL_PREFERRED_NEURON_NAMES = PREFERRED_HERM_NEURON_NAMES + MALE_SPECIFIC_NEURONS + + ALL_PREFERRED_CELL_NAMES = ( - PREFERRED_HERM_NEURON_NAMES + PREFERRED_MUSCLE_NAMES + KNOWN_OTHER_CELLS + ALL_PREFERRED_NEURON_NAMES + PREFERRED_MUSCLE_NAMES + ALL_NON_NEURON_MUSCLE_CELLS ) diff --git a/cect/ConnectomeView.py b/cect/ConnectomeView.py index 142edee22..7f81f7b79 100644 --- a/cect/ConnectomeView.py +++ b/cect/ConnectomeView.py @@ -6,8 +6,9 @@ from cect.Cells import SENSORY_NEURONS_NONPHARYNGEAL_COOK from cect.Cells import INTERNEURONS_NONPHARYNGEAL_COOK from cect.Cells import UNKNOWN_FUNCTION_NEURONS +from cect.Cells import MALE_SPECIFIC_NEURONS from cect.Cells import PREFERRED_MUSCLE_NAMES -from cect.Cells import KNOWN_OTHER_CELLS +from cect.Cells import ALL_NON_NEURON_MUSCLE_CELLS from cect.Cells import SENSORY_NEURONS_COOK_CATEGORIES @@ -175,7 +176,11 @@ def get_index_of_cell(self, cell): NEURONS_VIEW.node_sets.append(NodeSet(cell, [cell], get_standard_color(cell))) RAW_VIEW.node_sets.append(NodeSet(cell, [cell], get_standard_color(cell))) -for cell in sorted(PREFERRED_MUSCLE_NAMES) + sorted(KNOWN_OTHER_CELLS): +for cell in ( + sorted(MALE_SPECIFIC_NEURONS) + + sorted(PREFERRED_MUSCLE_NAMES) + + sorted(ALL_NON_NEURON_MUSCLE_CELLS) +): RAW_VIEW.node_sets.append(NodeSet(cell, [cell], get_standard_color(cell))) assert len(NEURONS_VIEW.node_sets) == 302 diff --git a/cect/__init__.py b/cect/__init__.py index 0883559e2..cdef37ecb 100755 --- a/cect/__init__.py +++ b/cect/__init__.py @@ -1,5 +1,7 @@ #! /usr/bin/env python +__version__ = "0.2.2" + def print_(msg, print_it=True): # print_it=False when not verbose if print_it: diff --git a/cect/data/all_cell_info.csv b/cect/data/all_cell_info.csv index d5b55cf60..4b4309581 100644 --- a/cect/data/all_cell_info.csv +++ b/cect/data/all_cell_info.csv @@ -301,6 +301,96 @@ VD6,Ventral cord motor neuron,Ventral D-type Motor Neuron 6,P5.app,"Ventral cord VD7,Ventral cord motor neuron,Ventral D-type Motor Neuron 7,P6.app,"Ventral cord motor neuron, innervates vent body muscles, reciprocal inhibitor" VD8,Ventral cord motor neuron,Ventral D-type Motor Neuron 8,P7.app,"Ventralcord motor neuron, innervates vent body muscles, reciprocal inhibitor" VD9,Ventral cord motor neuron,Ventral D-type Motor Neuron 9,P8.app,"Ventral cord motor neuron, innervates vent body muscles, reciprocal inhibitor" +MCML,Male head interneuron,Mystery Cell of the Male Left,AmsoL,Male specific interneuron +MCMR,Male head interneuron,Mystery Cell of the Male Right,AmsoR,Male specific interneuron +CEMDL,Male head sensory neuron,CEphalic Male Sensory Neuron Dorsal Left,AB plaaaaaap,"Male specific cephalic neurons (programmed cell death in hermaphrodite embryo) open to outside, possible function in male chemotaxis toward hermaphrodite" +CEMDR,Male head sensory neuron,CEphalic Male Sensory Neuron Dorsal Right,AB arpapaaap,"Male specific cephalic neurons (programmed cell death in hermaphrodite embryo) open to outside, possible function in male chemotaxis toward hermaphrodite" +CEMVL,Male head sensory neuron,CEphalic Male Sensory Neuron Ventral Left,AB plpaapapp,"Male specific cephalic neurons (programmed cell death in hermaphrodite embryo) open to outside, possible function in male chemotaxis toward hermaphrodite" +CEMVR,Male head sensory neuron,CEphalic Male Sensory Neuron Ventral Right,AB prpaapapp,"Male specific cephalic neurons (programmed cell death in hermaphrodite embryo) open to outside, possible function in male chemotaxis toward hermaphrodite" +PVV,Male interneuron,Posterior Ventral Process V,P11.paaa,"Male specific motor neuron, pre-anal ganglion" +PVX,Male interneuron,Posterior Ventral Process X,P12.aap,"Male specific interneuron, cell body in pre-anal ganglion, postsynaptic in ring and ventral cord" +PVY,Male interneuron,Posterior Ventral Process Y,P11.paap,"Male specific interneuron, cell body in pre-anal ganglion" +PVZ,Male interneuron,Posterior Ventral Process Z,P10.ppppa,"Male specific motor neuron, cell body in pre-anal ganglion" +DVE,Male interneuron,Dorsorectal Ventral Process E,B.ppap,"Male specific interneuron, cell body in dorsorectal ganglion" +DVF,Male interneuron,Dorsorectal Ventral Process F,B.ppppa,"Male specific interneuron, cell body in dorsorectal ganglion" +DX1,Male interneuron,- To be added... - ,Male interneuron,- To be added... - ,Interneuron +DX2,Male interneuron,- To be added... - ,Male interneuron,- To be added... - ,Interneuron +DX3,Male interneuron,- To be added... - ,Male interneuron,- To be added... - ,Interneuron +EF1,Male interneuron,- To be added... - ,Male interneuron,- To be added... - ,Interneuron +EF2,Male interneuron,- To be added... - ,Male interneuron,- To be added... - ,Interneuron +EF3,Male interneuron,- To be added... - ,Male interneuron,- To be added... - ,Interneuron +PDC,Male interneuron,Preanal Cell with Dorsal Process C,P11.papa,"Male specific interneuron, pre-anal ganglion" +PGA,Male interneuron,Preanal Ganglion Cell A,P11.papp,"Male specific interneuron, pre-anal ganglion" +CA01,Male interneuron,"C-type Neuron, Anterior Daughter after Division 1",P3.aapa,"Male specific cells, ventral cord, not constructed" +CA02,Male interneuron,"C-type Neuron, Anterior Daughter after Division 2",P4.aapa,"Male specific cells, ventral cord, not constructed" +CA03,Male interneuron,"C-type Neuron, Anterior Daughter after Division 3",P5.aapa,"Male specific cells, ventral cord, not constructed" +CA04,Male interneuron,"C-type Neuron, Anterior Daughter after Division 4",P6.aapa,"Male specific neuron, ventral cord, innervates dorsal muscles" +CA05,Male interneuron,"C-type Neuron, Anterior Daughter after Division 5",P7.aapa,"Male specific neuron, ventral cord, innervates dorsal muscles" +CA06,Male interneuron,"C-type Neuron, Anterior Daughter after Division 6",P8.aapa,"Male specific neuron, ventral cord, innervates dorsal muscles" +CA07,Male interneuron,"C-type Neuron, Anterior Daughter after Division 7",P9.aapa,"Male specific neuron, ventral cord, innervates dorsal muscles" +CA08,Male interneuron,"C-type Neuron, Anterior Daughter after Division 8",P10.aapa,"Male specific cell, ventral cord, neuron-like but lacks synapses" +CA09,Male interneuron,"C-type Neuron, Anterior Daughter after Division 9",P11.aapa,"Male specific cell, ventral cord, neuron-like but lacks synapses" +CP01,Male interneuron,"C-type Neuron, Posterior Daughter after Division 1",P3.aapp,Male specific neuron in ventral cord +CP02,Male interneuron,"C-type Neuron, Posterior Daughter after Division 2",P4.aapp,Male specific neuron in ventral cord +CP03,Male interneuron,"C-type Neuron, Posterior Daughter after Division 3",P5.aapp,Male specific neuron in ventral cord +CP04,Male interneuron,"C-type Neuron, Posterior Daughter after Division 4",P6.aapp,Male specific motor neuron in ventral cord +CP05,Male interneuron,"C-type Neuron, Posterior Daughter after Division 5",P7.aapp,Male specific motor neuron in ventral cord +CP06,Male interneuron,"C-type Neuron, Posterior Daughter after Division 6",P8.aapp,Male specific motor neuron in ventral cord +CP07,Male interneuron,"C-type Neuron, Posterior Daughter after Division 7",P9.aapp,Male specific motor neuron in ventral cord +CP08,Male interneuron,"C-type Neuron, Posterior Daughter after Division 8",P10.aapp,"Male specific interneuron, projects into preanal ganglion" +CP09,Male interneuron,"C-type Neuron, Posterior Daughter after Division 9",P11.aapp,"Male specific interneuron, projects into preanal ganglion" +R1AL,Male sensory neuron,Ray 1 Neuron A Left,"V5L.pppppaaa, (R1.aaaL)","Male sensory rays, neuron, striated rootlet, cell body in left lumbar ganglion" +R1AR,Male sensory neuron,Ray 1 Neuron A Right,"V5R.pppppaaa, (R1.aaaR)","Male sensory rays, neuron, striated rootlet, cell body in right lumbar ganglion" +R1BL,Male sensory neuron,Ray 1 Neuron B Left,"V5L.pppppapa, (R1.apaL)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in left lumbar ganglion" +R1BR,Male sensory neuron,Ray 1 Neuron B Right,"V5R.pppppapa, (R1.apaR)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in right lumbar ganglion" +R2AL,Male sensory neuron,Ray 2 Neuron A Left,"V6L.papapaaa, (R2.aaaL)","Male sensory rays, neuron, striated rootlet, cell body in left lumbar ganglion" +R2AR,Male sensory neuron,Ray 2 Neuron A Right,"V6R.papapaaa, (R2.aaaR)","Male sensory rays, neuron, striated rootlet, cell body in right lumbar ganglion" +R2BL,Male sensory neuron,Ray 2 Neuron B Left,"V6L.papapapa, (R2.apaL)","Male sensory rays, neuron, darkly staining tip, open to outside,cell body in left lumbar ganglion" +R2BR,Male sensory neuron,Ray 2 Neuron B Right,"V6R.papapapa, (R2.apaL)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in right lumbar ganglion" +R3AL,Male sensory neuron,Ray 3 Neuron A Left,"V6L.papppaaa, (R3.aaaL)","Male sensory rays, neuron, striated rootlet, cell body in left lumbar ganglion" +R3AR,Male sensory neuron,Ray 3 Neuron A Right,"V6R.papppaaa, (R3.aaaL)","Male sensory rays, neuron, striated rootlet, cell body in right lumbar ganglion" +R3BL,Male sensory neuron,Ray 3 Neuron B Left,"V6L.papppapa, (R3.apaL)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in left lumbar ganglion" +R3BR,Male sensory neuron,Ray 3 Neuron B Right,"V6R.papppapa, (R3.apaR)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in right lumbar ganglion" +R4AL,Male sensory neuron,Ray 4 Neuron A Left,"V6L.pppapaaa, (R4.aaaL)","Male sensory rays, neuron, striated rootlet, cell body in left lumbar ganglion" +R4AR,Male sensory neuron,Ray 4 Neuron A Right,"V6R.pppapaaa, (R4.aaaR)","Male sensory rays, neuron, striated rootlet, cell body in right lumbar ganglion" +R4BL,Male sensory neuron,Ray 4 Neuron B Left,"V6L.pppapapa, (R4.apaL)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in left lumbar ganglion" +R4BR,Male sensory neuron,Ray 4 Neuron B Right,"V6R.pppapapa, (R4.apaR)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in right lumbar ganglion" +R5AL,Male sensory neuron,Ray 5 Neuron A Left,"V6L.pppppaaa, (R5.aaaL)","Male sensory rays, neuron, striated rootlet, cell body in left lumbar ganglion" +R5AR,Male sensory neuron,Ray 5 Neuron A Right,"V6R.pppppaaa, (R5.aaaR)","Male sensory rays, neuron, striated rootlet, cell body in right lumbar ganglion" +R5BL,Male sensory neuron,Ray 5 Neuron B Left,"V6L.pppppapa, (R5.apaL)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in left lumbar ganglion" +R5BR,Male sensory neuron,Ray 5 Neuron B Right,"V6R.pppppapa, (R5.apaR)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in right lumbar ganglion" +R6AL,Male sensory neuron,Ray 6 Neuron A Left,"V6L.ppppaaaa, (R6.aaaL)","Male sensory rays, neuron, striated rootlet, cell body in left lumbar ganglion" +R6AR,Male sensory neuron,Ray 6 Neuron A Right,"V6R.ppppaaaa, (R6.aaaR)","Male sensory rays, neuron, striated rootlet, cell body in right lumbar ganglion" +R6BL,Male sensory neuron,Ray 6 Neuron B Left,"V6L.ppppaapa, (R6.apaL)","Male sensory rays, neuron, not darkly staining nor open to outside, cell body in left lumbar ganglion" +R6BR,Male sensory neuron,Ray 6 Neuron B Right,"V6R.ppppaapa, (R6.apaR)","Male sensory rays, neuron, not darkly staining nor open to outside, cell body in right lumbar ganglion" +R7AL,Male sensory neuron,Ray 7 Neuron A Left,"TL.apappaaa, (R7.aaaL)","Male sensory rays, neuron, striated rootlet, cell body in left lumbar ganglion" +R7AR,Male sensory neuron,Ray 7 Neuron A Right,"TR.apappaaa, (R7.aaaR)","Male sensory rays, neuron, striated rootlet, cell body in right lumbar ganglion" +R7BL,Male sensory neuron,Ray 7 Neuron B Left,"TL.apappapa, (R7.apaL)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in left lumbar ganglion" +R7BR,Male sensory neuron,Ray 7 Neuron B Right,"TR.apappapa, (R7.apaR)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in right lumbar ganglion" +R8AL,Male sensory neuron,Ray 8 Neuron A Left,"TL.appaaaaa, (R8.aaaL)","Male sensory rays, neuron, striated rootlet, cell body in left lumbar ganglion" +R8AR,Male sensory neuron,Ray 8 Neuron A Right,"TR.appaaaaa, (R8.aaaR)","Male sensory rays, neuron, striated rootlet, cell body in right lumbar ganglion" +R8BL,Male sensory neuron,Ray 8 Neuron B Left,"TL.appaaapa, (R8.apaL)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in left lumbar ganglion" +R8BR,Male sensory neuron,Ray 8 Neuron B Right,"TR.appaaapa, (R8.apaR)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in right lumbar ganglion" +R9AL,Male sensory neuron,Ray 9 Neuron A Left,"TL.appapaaa, (R9.aaaL)","Male sensory rays, neuron, striated rootlet, cell body in left lumbar ganglion" +R9AR,Male sensory neuron,Ray 9 Neuron A Right,"TR.appapaaa, (R9.aaaR)","Male sensory rays, neuron, striated rootlet, cell body in right lumbar ganglion" +R9BL,Male sensory neuron,Ray 9 Neuron B Left,"TL.appapapa, (R9.apaL)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in left lumbar ganglion" +R9BR,Male sensory neuron,Ray 9 Neuron B Right,"TR.appapapa, (R9.apaR)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in right lumbar ganglion" +PHDL,Male sensory neuron,PHasmid Neuron D Left,TL.paa (PHsoL),Male specific sensory neuron +PHDR,Male sensory neuron,PHasmid Neuron D Right,TR.paa (PHsoR),Male specific sensory neuron +HOA,Male sensory neuron,HOok Neuron A,P10.pppa,"Male specific neuron, sensory ending in male hook sensillum, cell body in pre-anal ganglion" +HOB,Male sensory neuron,HOok Neuron B,P10.ppap,"Male specific neuron, sensory ending in male hook sensillum, cell body in pre-anal ganglion" +PCAL,Male sensory neuron,PostCloacal Sensilla Neuron A Left,Y.plppd,"Male specific sensory-motor neuron, sensory ending in male postcloacal sensilla, cell body in left cloacal ganglion" +PCAR,Male sensory neuron,PostCloacal Sensilla Neuron A Right,Y.prppd,"Male specific sensory-motor neuron, sensory ending in male postcloacal sensilla, cell body in right cloacal ganglion" +PCBL,Male sensory neuron,PostCloacal Sensilla Neuron B Left,Y.plpa,"Male specific sensory-motor neuron, sensory ending in male postcloacal sensilla, cell body in left cloacal ganglion" +PCBR,Male sensory neuron,PostCloacal Sensilla Neuron B Right,Y.prpa,"Male specific sensory-motor neuron, sensory ending in male postcloacal sensilla, cell body in right cloacal ganglion" +PCCL,Male sensory neuron,PostCloacal Sensilla Neuron C Left,B.arpaaa,"Male specific sensory-motor neuron, sensory ending in male postcloacal sensilla, cell body in left cloacal ganglion" +PCCR,Male sensory neuron,PostCloacal Sensilla Neuron C Right,B.alpaaa,"Male specific sensory-motor neuron, sensory ending in male postcloacal sensilla, cell body in right cloacal ganglion" +SPCL,Male sensory neuron,SPicule Neuron C Left,B.alpaap,"Male specific sensory/motor neuron, innervates spicule protractor muscle, cell body in left cloacal ganglion" +SPCR,Male sensory neuron,SPicule Neuron C Right,B.arpaap,"Male specific sensory/motor neuron, innervates spicule protractor muscle, cell body in right cloacal ganglion" +SPDL,Male sensory neuron,SPicule Neuron D Left,B.alpapaa,"Male specific sensory neuron of male copulatory spicules, ciliated, open to outside at tip of spicule, cell body in left cloacal ganglion" +SPDR,Male sensory neuron,SPicule Neuron D Right,B.arpapaa,"Male specific sensory neuron of male copulatory spicules, ciliated, open to outside at tip of spicule, cell body in right cloacal ganglion" +SPVL,Male sensory neuron,SPicule Neuron V Left,B.al/raalda,"Male specific sensory neuron of male copulatory spicules, ciliated, open to outside at tip of spicule, cell body in left cloacal ganglion" +SPVR,Male sensory neuron,SPicule Neuron V Right,B.al/raarda,"Male specific sensory neuron of male copulatory spicules, ciliated, open to outside at tip of spicule, cell body in right cloacal ganglion" MDL01,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle MDL02,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle MDL03,Head muscle,- To be added... - ,Head muscle,- To be added... - ,Body wall muscle @@ -519,96 +609,6 @@ exc_gl,Excretory gland,- To be added... - ,Excretory gland,- To be added... - ,G hmc,Head mesodermal cell,- To be added... - ,Head mesodermal cell,- To be added... - ,Head mesodermal cell hyp,Hypodermis,- To be added... - ,Hypodermis,- To be added... - ,Hypodermis int,Intestine,- To be added... - ,Intestine,- To be added... - ,Intestinal cells -MCML,Male head interneuron,Mystery Cell of the Male Left,AmsoL,Male specific interneuron -MCMR,Male head interneuron,Mystery Cell of the Male Right,AmsoR,Male specific interneuron -CEMDL,Male head sensory neuron,CEphalic Male Sensory Neuron Dorsal Left,AB plaaaaaap,"Male specific cephalic neurons (programmed cell death in hermaphrodite embryo) open to outside, possible function in male chemotaxis toward hermaphrodite" -CEMDR,Male head sensory neuron,CEphalic Male Sensory Neuron Dorsal Right,AB arpapaaap,"Male specific cephalic neurons (programmed cell death in hermaphrodite embryo) open to outside, possible function in male chemotaxis toward hermaphrodite" -CEMVL,Male head sensory neuron,CEphalic Male Sensory Neuron Ventral Left,AB plpaapapp,"Male specific cephalic neurons (programmed cell death in hermaphrodite embryo) open to outside, possible function in male chemotaxis toward hermaphrodite" -CEMVR,Male head sensory neuron,CEphalic Male Sensory Neuron Ventral Right,AB prpaapapp,"Male specific cephalic neurons (programmed cell death in hermaphrodite embryo) open to outside, possible function in male chemotaxis toward hermaphrodite" -PVV,Male interneuron,Posterior Ventral Process V,P11.paaa,"Male specific motor neuron, pre-anal ganglion" -PVX,Male interneuron,Posterior Ventral Process X,P12.aap,"Male specific interneuron, cell body in pre-anal ganglion, postsynaptic in ring and ventral cord" -PVY,Male interneuron,Posterior Ventral Process Y,P11.paap,"Male specific interneuron, cell body in pre-anal ganglion" -PVZ,Male interneuron,Posterior Ventral Process Z,P10.ppppa,"Male specific motor neuron, cell body in pre-anal ganglion" -DVE,Male interneuron,Dorsorectal Ventral Process E,B.ppap,"Male specific interneuron, cell body in dorsorectal ganglion" -DVF,Male interneuron,Dorsorectal Ventral Process F,B.ppppa,"Male specific interneuron, cell body in dorsorectal ganglion" -DX1,Male interneuron,- To be added... - ,Male interneuron,- To be added... - ,Interneuron -DX2,Male interneuron,- To be added... - ,Male interneuron,- To be added... - ,Interneuron -DX3,Male interneuron,- To be added... - ,Male interneuron,- To be added... - ,Interneuron -EF1,Male interneuron,- To be added... - ,Male interneuron,- To be added... - ,Interneuron -EF2,Male interneuron,- To be added... - ,Male interneuron,- To be added... - ,Interneuron -EF3,Male interneuron,- To be added... - ,Male interneuron,- To be added... - ,Interneuron -PDC,Male interneuron,Preanal Cell with Dorsal Process C,P11.papa,"Male specific interneuron, pre-anal ganglion" -PGA,Male interneuron,Preanal Ganglion Cell A,P11.papp,"Male specific interneuron, pre-anal ganglion" -CA01,Male interneuron,"C-type Neuron, Anterior Daughter after Division 1",P3.aapa,"Male specific cells, ventral cord, not constructed" -CA02,Male interneuron,"C-type Neuron, Anterior Daughter after Division 2",P4.aapa,"Male specific cells, ventral cord, not constructed" -CA03,Male interneuron,"C-type Neuron, Anterior Daughter after Division 3",P5.aapa,"Male specific cells, ventral cord, not constructed" -CA04,Male interneuron,"C-type Neuron, Anterior Daughter after Division 4",P6.aapa,"Male specific neuron, ventral cord, innervates dorsal muscles" -CA05,Male interneuron,"C-type Neuron, Anterior Daughter after Division 5",P7.aapa,"Male specific neuron, ventral cord, innervates dorsal muscles" -CA06,Male interneuron,"C-type Neuron, Anterior Daughter after Division 6",P8.aapa,"Male specific neuron, ventral cord, innervates dorsal muscles" -CA07,Male interneuron,"C-type Neuron, Anterior Daughter after Division 7",P9.aapa,"Male specific neuron, ventral cord, innervates dorsal muscles" -CA08,Male interneuron,"C-type Neuron, Anterior Daughter after Division 8",P10.aapa,"Male specific cell, ventral cord, neuron-like but lacks synapses" -CA09,Male interneuron,"C-type Neuron, Anterior Daughter after Division 9",P11.aapa,"Male specific cell, ventral cord, neuron-like but lacks synapses" -CP01,Male interneuron,"C-type Neuron, Posterior Daughter after Division 1",P3.aapp,Male specific neuron in ventral cord -CP02,Male interneuron,"C-type Neuron, Posterior Daughter after Division 2",P4.aapp,Male specific neuron in ventral cord -CP03,Male interneuron,"C-type Neuron, Posterior Daughter after Division 3",P5.aapp,Male specific neuron in ventral cord -CP04,Male interneuron,"C-type Neuron, Posterior Daughter after Division 4",P6.aapp,Male specific motor neuron in ventral cord -CP05,Male interneuron,"C-type Neuron, Posterior Daughter after Division 5",P7.aapp,Male specific motor neuron in ventral cord -CP06,Male interneuron,"C-type Neuron, Posterior Daughter after Division 6",P8.aapp,Male specific motor neuron in ventral cord -CP07,Male interneuron,"C-type Neuron, Posterior Daughter after Division 7",P9.aapp,Male specific motor neuron in ventral cord -CP08,Male interneuron,"C-type Neuron, Posterior Daughter after Division 8",P10.aapp,"Male specific interneuron, projects into preanal ganglion" -CP09,Male interneuron,"C-type Neuron, Posterior Daughter after Division 9",P11.aapp,"Male specific interneuron, projects into preanal ganglion" -R1AL,Male sensory neuron,Ray 1 Neuron A Left,"V5L.pppppaaa, (R1.aaaL)","Male sensory rays, neuron, striated rootlet, cell body in left lumbar ganglion" -R1AR,Male sensory neuron,Ray 1 Neuron A Right,"V5R.pppppaaa, (R1.aaaR)","Male sensory rays, neuron, striated rootlet, cell body in right lumbar ganglion" -R1BL,Male sensory neuron,Ray 1 Neuron B Left,"V5L.pppppapa, (R1.apaL)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in left lumbar ganglion" -R1BR,Male sensory neuron,Ray 1 Neuron B Right,"V5R.pppppapa, (R1.apaR)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in right lumbar ganglion" -R2AL,Male sensory neuron,Ray 2 Neuron A Left,"V6L.papapaaa, (R2.aaaL)","Male sensory rays, neuron, striated rootlet, cell body in left lumbar ganglion" -R2AR,Male sensory neuron,Ray 2 Neuron A Right,"V6R.papapaaa, (R2.aaaR)","Male sensory rays, neuron, striated rootlet, cell body in right lumbar ganglion" -R2BL,Male sensory neuron,Ray 2 Neuron B Left,"V6L.papapapa, (R2.apaL)","Male sensory rays, neuron, darkly staining tip, open to outside,cell body in left lumbar ganglion" -R2BR,Male sensory neuron,Ray 2 Neuron B Right,"V6R.papapapa, (R2.apaL)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in right lumbar ganglion" -R3AL,Male sensory neuron,Ray 3 Neuron A Left,"V6L.papppaaa, (R3.aaaL)","Male sensory rays, neuron, striated rootlet, cell body in left lumbar ganglion" -R3AR,Male sensory neuron,Ray 3 Neuron A Right,"V6R.papppaaa, (R3.aaaL)","Male sensory rays, neuron, striated rootlet, cell body in right lumbar ganglion" -R3BL,Male sensory neuron,Ray 3 Neuron B Left,"V6L.papppapa, (R3.apaL)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in left lumbar ganglion" -R3BR,Male sensory neuron,Ray 3 Neuron B Right,"V6R.papppapa, (R3.apaR)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in right lumbar ganglion" -R4AL,Male sensory neuron,Ray 4 Neuron A Left,"V6L.pppapaaa, (R4.aaaL)","Male sensory rays, neuron, striated rootlet, cell body in left lumbar ganglion" -R4AR,Male sensory neuron,Ray 4 Neuron A Right,"V6R.pppapaaa, (R4.aaaR)","Male sensory rays, neuron, striated rootlet, cell body in right lumbar ganglion" -R4BL,Male sensory neuron,Ray 4 Neuron B Left,"V6L.pppapapa, (R4.apaL)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in left lumbar ganglion" -R4BR,Male sensory neuron,Ray 4 Neuron B Right,"V6R.pppapapa, (R4.apaR)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in right lumbar ganglion" -R5AL,Male sensory neuron,Ray 5 Neuron A Left,"V6L.pppppaaa, (R5.aaaL)","Male sensory rays, neuron, striated rootlet, cell body in left lumbar ganglion" -R5AR,Male sensory neuron,Ray 5 Neuron A Right,"V6R.pppppaaa, (R5.aaaR)","Male sensory rays, neuron, striated rootlet, cell body in right lumbar ganglion" -R5BL,Male sensory neuron,Ray 5 Neuron B Left,"V6L.pppppapa, (R5.apaL)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in left lumbar ganglion" -R5BR,Male sensory neuron,Ray 5 Neuron B Right,"V6R.pppppapa, (R5.apaR)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in right lumbar ganglion" -R6AL,Male sensory neuron,Ray 6 Neuron A Left,"V6L.ppppaaaa, (R6.aaaL)","Male sensory rays, neuron, striated rootlet, cell body in left lumbar ganglion" -R6AR,Male sensory neuron,Ray 6 Neuron A Right,"V6R.ppppaaaa, (R6.aaaR)","Male sensory rays, neuron, striated rootlet, cell body in right lumbar ganglion" -R6BL,Male sensory neuron,Ray 6 Neuron B Left,"V6L.ppppaapa, (R6.apaL)","Male sensory rays, neuron, not darkly staining nor open to outside, cell body in left lumbar ganglion" -R6BR,Male sensory neuron,Ray 6 Neuron B Right,"V6R.ppppaapa, (R6.apaR)","Male sensory rays, neuron, not darkly staining nor open to outside, cell body in right lumbar ganglion" -R7AL,Male sensory neuron,Ray 7 Neuron A Left,"TL.apappaaa, (R7.aaaL)","Male sensory rays, neuron, striated rootlet, cell body in left lumbar ganglion" -R7AR,Male sensory neuron,Ray 7 Neuron A Right,"TR.apappaaa, (R7.aaaR)","Male sensory rays, neuron, striated rootlet, cell body in right lumbar ganglion" -R7BL,Male sensory neuron,Ray 7 Neuron B Left,"TL.apappapa, (R7.apaL)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in left lumbar ganglion" -R7BR,Male sensory neuron,Ray 7 Neuron B Right,"TR.apappapa, (R7.apaR)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in right lumbar ganglion" -R8AL,Male sensory neuron,Ray 8 Neuron A Left,"TL.appaaaaa, (R8.aaaL)","Male sensory rays, neuron, striated rootlet, cell body in left lumbar ganglion" -R8AR,Male sensory neuron,Ray 8 Neuron A Right,"TR.appaaaaa, (R8.aaaR)","Male sensory rays, neuron, striated rootlet, cell body in right lumbar ganglion" -R8BL,Male sensory neuron,Ray 8 Neuron B Left,"TL.appaaapa, (R8.apaL)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in left lumbar ganglion" -R8BR,Male sensory neuron,Ray 8 Neuron B Right,"TR.appaaapa, (R8.apaR)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in right lumbar ganglion" -R9AL,Male sensory neuron,Ray 9 Neuron A Left,"TL.appapaaa, (R9.aaaL)","Male sensory rays, neuron, striated rootlet, cell body in left lumbar ganglion" -R9AR,Male sensory neuron,Ray 9 Neuron A Right,"TR.appapaaa, (R9.aaaR)","Male sensory rays, neuron, striated rootlet, cell body in right lumbar ganglion" -R9BL,Male sensory neuron,Ray 9 Neuron B Left,"TL.appapapa, (R9.apaL)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in left lumbar ganglion" -R9BR,Male sensory neuron,Ray 9 Neuron B Right,"TR.appapapa, (R9.apaR)","Male sensory rays, neuron, darkly staining tip, open to outside, cell body in right lumbar ganglion" -PHDL,Male sensory neuron,PHasmid Neuron D Left,TL.paa (PHsoL),Male specific sensory neuron -PHDR,Male sensory neuron,PHasmid Neuron D Right,TR.paa (PHsoR),Male specific sensory neuron -HOA,Male sensory neuron,HOok Neuron A,P10.pppa,"Male specific neuron, sensory ending in male hook sensillum, cell body in pre-anal ganglion" -HOB,Male sensory neuron,HOok Neuron B,P10.ppap,"Male specific neuron, sensory ending in male hook sensillum, cell body in pre-anal ganglion" -PCAL,Male sensory neuron,PostCloacal Sensilla Neuron A Left,Y.plppd,"Male specific sensory-motor neuron, sensory ending in male postcloacal sensilla, cell body in left cloacal ganglion" -PCAR,Male sensory neuron,PostCloacal Sensilla Neuron A Right,Y.prppd,"Male specific sensory-motor neuron, sensory ending in male postcloacal sensilla, cell body in right cloacal ganglion" -PCBL,Male sensory neuron,PostCloacal Sensilla Neuron B Left,Y.plpa,"Male specific sensory-motor neuron, sensory ending in male postcloacal sensilla, cell body in left cloacal ganglion" -PCBR,Male sensory neuron,PostCloacal Sensilla Neuron B Right,Y.prpa,"Male specific sensory-motor neuron, sensory ending in male postcloacal sensilla, cell body in right cloacal ganglion" -PCCL,Male sensory neuron,PostCloacal Sensilla Neuron C Left,B.arpaaa,"Male specific sensory-motor neuron, sensory ending in male postcloacal sensilla, cell body in left cloacal ganglion" -PCCR,Male sensory neuron,PostCloacal Sensilla Neuron C Right,B.alpaaa,"Male specific sensory-motor neuron, sensory ending in male postcloacal sensilla, cell body in right cloacal ganglion" -SPCL,Male sensory neuron,SPicule Neuron C Left,B.alpaap,"Male specific sensory/motor neuron, innervates spicule protractor muscle, cell body in left cloacal ganglion" -SPCR,Male sensory neuron,SPicule Neuron C Right,B.arpaap,"Male specific sensory/motor neuron, innervates spicule protractor muscle, cell body in right cloacal ganglion" -SPDL,Male sensory neuron,SPicule Neuron D Left,B.alpapaa,"Male specific sensory neuron of male copulatory spicules, ciliated, open to outside at tip of spicule, cell body in left cloacal ganglion" -SPDR,Male sensory neuron,SPicule Neuron D Right,B.arpapaa,"Male specific sensory neuron of male copulatory spicules, ciliated, open to outside at tip of spicule, cell body in right cloacal ganglion" -SPVL,Male sensory neuron,SPicule Neuron V Left,B.al/raalda,"Male specific sensory neuron of male copulatory spicules, ciliated, open to outside at tip of spicule, cell body in left cloacal ganglion" -SPVR,Male sensory neuron,SPicule Neuron V Right,B.al/raarda,"Male specific sensory neuron of male copulatory spicules, ciliated, open to outside at tip of spicule, cell body in right cloacal ganglion" R1stL,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell R1stR,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell R2stL,Male ray structural cell,- To be added... - ,Male ray structural cell,- To be added... - ,Ray structural cell diff --git a/mkdocs.yml b/mkdocs.yml index db85ee2dc..beb757519 100644 --- a/mkdocs.yml +++ b/mkdocs.yml @@ -103,7 +103,7 @@ nav: - 'Ripoll-Sánchez 2023 (long)': 'RipollSanchezLongRange_data.md' - 'Test': 'Test_data_graph.md' - Cells: - - 'All C. elegans cells': 'Cells.md' + - 'All C. elegans cells': 'Cells.md' - 'Individual neurons': - 'ADAL': 'ADAL.md' - 'ADAR': 'ADAR.md' @@ -187,12 +187,34 @@ nav: - 'BAGR': 'BAGR.md' - 'BDUL': 'BDUL.md' - 'BDUR': 'BDUR.md' + - 'CA01': 'CA01.md' + - 'CA02': 'CA02.md' + - 'CA03': 'CA03.md' + - 'CA04': 'CA04.md' + - 'CA05': 'CA05.md' + - 'CA06': 'CA06.md' + - 'CA07': 'CA07.md' + - 'CA08': 'CA08.md' + - 'CA09': 'CA09.md' - 'CANL': 'CANL.md' - 'CANR': 'CANR.md' + - 'CEMDL': 'CEMDL.md' + - 'CEMDR': 'CEMDR.md' + - 'CEMVL': 'CEMVL.md' + - 'CEMVR': 'CEMVR.md' - 'CEPDL': 'CEPDL.md' - 'CEPDR': 'CEPDR.md' - 'CEPVL': 'CEPVL.md' - 'CEPVR': 'CEPVR.md' + - 'CP01': 'CP01.md' + - 'CP02': 'CP02.md' + - 'CP03': 'CP03.md' + - 'CP04': 'CP04.md' + - 'CP05': 'CP05.md' + - 'CP06': 'CP06.md' + - 'CP07': 'CP07.md' + - 'CP08': 'CP08.md' + - 'CP09': 'CP09.md' - 'DA1': 'DA1.md' - 'DA2': 'DA2.md' - 'DA3': 'DA3.md' @@ -218,8 +240,18 @@ nav: - 'DVA': 'DVA.md' - 'DVB': 'DVB.md' - 'DVC': 'DVC.md' + - 'DVE': 'DVE.md' + - 'DVF': 'DVF.md' + - 'DX1': 'DX1.md' + - 'DX2': 'DX2.md' + - 'DX3': 'DX3.md' + - 'EF1': 'EF1.md' + - 'EF2': 'EF2.md' + - 'EF3': 'EF3.md' - 'FLPL': 'FLPL.md' - 'FLPR': 'FLPR.md' + - 'HOA': 'HOA.md' + - 'HOB': 'HOB.md' - 'HSNL': 'HSNL.md' - 'HSNR': 'HSNR.md' - 'I1L': 'I1L.md' @@ -252,6 +284,8 @@ nav: - 'M4': 'M4.md' - 'M5': 'M5.md' - 'MCL': 'MCL.md' + - 'MCML': 'MCML.md' + - 'MCMR': 'MCMR.md' - 'MCR': 'MCR.md' - 'MI': 'MI.md' - 'NSML': 'NSML.md' @@ -262,16 +296,26 @@ nav: - 'OLQDR': 'OLQDR.md' - 'OLQVL': 'OLQVL.md' - 'OLQVR': 'OLQVR.md' + - 'PCAL': 'PCAL.md' + - 'PCAR': 'PCAR.md' + - 'PCBL': 'PCBL.md' + - 'PCBR': 'PCBR.md' + - 'PCCL': 'PCCL.md' + - 'PCCR': 'PCCR.md' - 'PDA': 'PDA.md' - 'PDB': 'PDB.md' + - 'PDC': 'PDC.md' - 'PDEL': 'PDEL.md' - 'PDER': 'PDER.md' + - 'PGA': 'PGA.md' - 'PHAL': 'PHAL.md' - 'PHAR': 'PHAR.md' - 'PHBL': 'PHBL.md' - 'PHBR': 'PHBR.md' - 'PHCL': 'PHCL.md' - 'PHCR': 'PHCR.md' + - 'PHDL': 'PHDL.md' + - 'PHDR': 'PHDR.md' - 'PLML': 'PLML.md' - 'PLMR': 'PLMR.md' - 'PLNL': 'PLNL.md' @@ -290,8 +334,48 @@ nav: - 'PVQR': 'PVQR.md' - 'PVR': 'PVR.md' - 'PVT': 'PVT.md' + - 'PVV': 'PVV.md' - 'PVWL': 'PVWL.md' - 'PVWR': 'PVWR.md' + - 'PVX': 'PVX.md' + - 'PVY': 'PVY.md' + - 'PVZ': 'PVZ.md' + - 'R1AL': 'R1AL.md' + - 'R1AR': 'R1AR.md' + - 'R1BL': 'R1BL.md' + - 'R1BR': 'R1BR.md' + - 'R2AL': 'R2AL.md' + - 'R2AR': 'R2AR.md' + - 'R2BL': 'R2BL.md' + - 'R2BR': 'R2BR.md' + - 'R3AL': 'R3AL.md' + - 'R3AR': 'R3AR.md' + - 'R3BL': 'R3BL.md' + - 'R3BR': 'R3BR.md' + - 'R4AL': 'R4AL.md' + - 'R4AR': 'R4AR.md' + - 'R4BL': 'R4BL.md' + - 'R4BR': 'R4BR.md' + - 'R5AL': 'R5AL.md' + - 'R5AR': 'R5AR.md' + - 'R5BL': 'R5BL.md' + - 'R5BR': 'R5BR.md' + - 'R6AL': 'R6AL.md' + - 'R6AR': 'R6AR.md' + - 'R6BL': 'R6BL.md' + - 'R6BR': 'R6BR.md' + - 'R7AL': 'R7AL.md' + - 'R7AR': 'R7AR.md' + - 'R7BL': 'R7BL.md' + - 'R7BR': 'R7BR.md' + - 'R8AL': 'R8AL.md' + - 'R8AR': 'R8AR.md' + - 'R8BL': 'R8BL.md' + - 'R8BR': 'R8BR.md' + - 'R9AL': 'R9AL.md' + - 'R9AR': 'R9AR.md' + - 'R9BL': 'R9BL.md' + - 'R9BR': 'R9BR.md' - 'RIAL': 'RIAL.md' - 'RIAR': 'RIAR.md' - 'RIBL': 'RIBL.md' @@ -353,6 +437,12 @@ nav: - 'SMDDR': 'SMDDR.md' - 'SMDVL': 'SMDVL.md' - 'SMDVR': 'SMDVR.md' + - 'SPCL': 'SPCL.md' + - 'SPCR': 'SPCR.md' + - 'SPDL': 'SPDL.md' + - 'SPDR': 'SPDR.md' + - 'SPVL': 'SPVL.md' + - 'SPVR': 'SPVR.md' - 'URADL': 'URADL.md' - 'URADR': 'URADR.md' - 'URAVL': 'URAVL.md' @@ -408,7 +498,36 @@ nav: - 'VD8': 'VD8.md' - 'VD9': 'VD9.md' - 'Individual muscles': + - 'ailL': 'ailL.md' + - 'ailR': 'ailR.md' + - 'aobL': 'aobL.md' + - 'aobR': 'aobR.md' - 'BWM': 'BWM.md' + - 'cdlL': 'cdlL.md' + - 'cdlR': 'cdlR.md' + - 'dglL1': 'dglL1.md' + - 'dglL2': 'dglL2.md' + - 'dglL3': 'dglL3.md' + - 'dglL4': 'dglL4.md' + - 'dglL5': 'dglL5.md' + - 'dglL6': 'dglL6.md' + - 'dglL7': 'dglL7.md' + - 'dglR1': 'dglR1.md' + - 'dglR2': 'dglR2.md' + - 'dglR3': 'dglR3.md' + - 'dglR4': 'dglR4.md' + - 'dglR5': 'dglR5.md' + - 'dglR6': 'dglR6.md' + - 'dglR7': 'dglR7.md' + - 'dglR8': 'dglR8.md' + - 'dspL': 'dspL.md' + - 'dspR': 'dspR.md' + - 'dsrL': 'dsrL.md' + - 'dsrR': 'dsrR.md' + - 'gecL': 'gecL.md' + - 'gecR': 'gecR.md' + - 'grtL': 'grtL.md' + - 'grtR': 'grtR.md' - 'MANAL': 'MANAL.md' - 'MDL01': 'MDL01.md' - 'MDL02': 'MDL02.md' @@ -458,6 +577,10 @@ nav: - 'MDR22': 'MDR22.md' - 'MDR23': 'MDR23.md' - 'MDR24': 'MDR24.md' + - 'mu_anal': 'mu_anal.md' + - 'mu_intL': 'mu_intL.md' + - 'mu_intR': 'mu_intR.md' + - 'mu_sph': 'mu_sph.md' - 'MVL01': 'MVL01.md' - 'MVL02': 'MVL02.md' - 'MVL03': 'MVL03.md' @@ -506,39 +629,6 @@ nav: - 'MVR23': 'MVR23.md' - 'MVR24': 'MVR24.md' - 'MVULVA': 'MVULVA.md' - - 'ailL': 'ailL.md' - - 'ailR': 'ailR.md' - - 'aobL': 'aobL.md' - - 'aobR': 'aobR.md' - - 'cdlL': 'cdlL.md' - - 'cdlR': 'cdlR.md' - - 'dglL1': 'dglL1.md' - - 'dglL2': 'dglL2.md' - - 'dglL3': 'dglL3.md' - - 'dglL4': 'dglL4.md' - - 'dglL5': 'dglL5.md' - - 'dglL6': 'dglL6.md' - - 'dglL7': 'dglL7.md' - - 'dglR1': 'dglR1.md' - - 'dglR2': 'dglR2.md' - - 'dglR3': 'dglR3.md' - - 'dglR4': 'dglR4.md' - - 'dglR5': 'dglR5.md' - - 'dglR6': 'dglR6.md' - - 'dglR7': 'dglR7.md' - - 'dglR8': 'dglR8.md' - - 'dspL': 'dspL.md' - - 'dspR': 'dspR.md' - - 'dsrL': 'dsrL.md' - - 'dsrR': 'dsrR.md' - - 'gecL': 'gecL.md' - - 'gecR': 'gecR.md' - - 'grtL': 'grtL.md' - - 'grtR': 'grtR.md' - - 'mu_anal': 'mu_anal.md' - - 'mu_intL': 'mu_intL.md' - - 'mu_intR': 'mu_intR.md' - - 'mu_sph': 'mu_sph.md' - 'pilL': 'pilL.md' - 'pilR': 'pilR.md' - 'pm1': 'pm1.md' @@ -587,174 +677,84 @@ nav: - 'vsrL': 'vsrL.md' - 'vsrR': 'vsrR.md' - 'Other cells': - - 'CA01': 'CA01.md' - - 'CA02': 'CA02.md' - - 'CA03': 'CA03.md' - - 'CA04': 'CA04.md' - - 'CA05': 'CA05.md' - - 'CA06': 'CA06.md' - - 'CA07': 'CA07.md' - - 'CA08': 'CA08.md' - - 'CA09': 'CA09.md' - - 'CEMDL': 'CEMDL.md' - - 'CEMDR': 'CEMDR.md' - - 'CEMVL': 'CEMVL.md' - - 'CEMVR': 'CEMVR.md' + - 'bm': 'bm.md' - 'CEPshDL': 'CEPshDL.md' - 'CEPshDR': 'CEPshDR.md' - 'CEPshVL': 'CEPshVL.md' - 'CEPshVR': 'CEPshVR.md' - - 'CP01': 'CP01.md' - - 'CP02': 'CP02.md' - - 'CP03': 'CP03.md' - - 'CP04': 'CP04.md' - - 'CP05': 'CP05.md' - - 'CP06': 'CP06.md' - - 'CP07': 'CP07.md' - - 'CP08': 'CP08.md' - - 'CP09': 'CP09.md' - - 'DVE': 'DVE.md' - - 'DVF': 'DVF.md' - - 'DX1': 'DX1.md' - - 'DX2': 'DX2.md' - - 'DX3': 'DX3.md' - - 'EF1': 'EF1.md' - - 'EF2': 'EF2.md' - - 'EF3': 'EF3.md' + - 'e2D': 'e2D.md' + - 'e2DL': 'e2DL.md' + - 'e2DR': 'e2DR.md' + - 'e2V': 'e2V.md' + - 'e2VL': 'e2VL.md' + - 'e2VR': 'e2VR.md' + - 'e3D': 'e3D.md' + - 'e3VL': 'e3VL.md' + - 'e3VR': 'e3VR.md' + - 'exc_cell': 'exc_cell.md' + - 'exc_gl': 'exc_gl.md' + - 'g1AL': 'g1AL.md' + - 'g1AR': 'g1AR.md' + - 'g1p': 'g1p.md' + - 'g1P': 'g1P.md' + - 'g2L': 'g2L.md' + - 'g2R': 'g2R.md' - 'GLRDL': 'GLRDL.md' - 'GLRDR': 'GLRDR.md' - 'GLRL': 'GLRL.md' - 'GLRR': 'GLRR.md' - 'GLRVL': 'GLRVL.md' - 'GLRVR': 'GLRVR.md' - - 'HOA': 'HOA.md' - - 'HOB': 'HOB.md' - - 'MCML': 'MCML.md' - - 'MCMR': 'MCMR.md' - - 'PCAL': 'PCAL.md' - - 'PCAR': 'PCAR.md' - - 'PCBL': 'PCBL.md' - - 'PCBR': 'PCBR.md' - - 'PCCL': 'PCCL.md' - - 'PCCR': 'PCCR.md' - - 'PDC': 'PDC.md' - - 'PGA': 'PGA.md' - - 'PHDL': 'PHDL.md' - - 'PHDR': 'PHDR.md' - - 'PVV': 'PVV.md' - - 'PVX': 'PVX.md' - - 'PVY': 'PVY.md' - - 'PVZ': 'PVZ.md' - - 'R1AL': 'R1AL.md' - - 'R1AR': 'R1AR.md' - - 'R1BL': 'R1BL.md' - - 'R1BR': 'R1BR.md' + - 'gonad': 'gonad.md' + - 'hmc': 'hmc.md' + - 'hyp': 'hyp.md' + - 'int': 'int.md' + - 'mc1DL': 'mc1DL.md' + - 'mc1DR': 'mc1DR.md' + - 'mc1V': 'mc1V.md' + - 'mc2DL': 'mc2DL.md' + - 'mc2DR': 'mc2DR.md' + - 'mc2V': 'mc2V.md' + - 'mc3DL': 'mc3DL.md' + - 'mc3DR': 'mc3DR.md' + - 'mc3V': 'mc3V.md' + - 'proctodeum': 'proctodeum.md' - 'R1shL': 'R1shL.md' - 'R1shR': 'R1shR.md' - 'R1stL': 'R1stL.md' - 'R1stR': 'R1stR.md' - - 'R2AL': 'R2AL.md' - - 'R2AR': 'R2AR.md' - - 'R2BL': 'R2BL.md' - - 'R2BR': 'R2BR.md' - 'R2shL': 'R2shL.md' - 'R2shR': 'R2shR.md' - 'R2stL': 'R2stL.md' - 'R2stR': 'R2stR.md' - - 'R3AL': 'R3AL.md' - - 'R3AR': 'R3AR.md' - - 'R3BL': 'R3BL.md' - - 'R3BR': 'R3BR.md' - 'R3shL': 'R3shL.md' - 'R3shR': 'R3shR.md' - 'R3stL': 'R3stL.md' - 'R3stR': 'R3stR.md' - - 'R4AL': 'R4AL.md' - - 'R4AR': 'R4AR.md' - - 'R4BL': 'R4BL.md' - - 'R4BR': 'R4BR.md' - 'R4shL': 'R4shL.md' - 'R4shR': 'R4shR.md' - 'R4stL': 'R4stL.md' - 'R4stR': 'R4stR.md' - - 'R5AL': 'R5AL.md' - - 'R5AR': 'R5AR.md' - - 'R5BL': 'R5BL.md' - - 'R5BR': 'R5BR.md' - 'R5shL': 'R5shL.md' - 'R5shR': 'R5shR.md' - 'R5stL': 'R5stL.md' - 'R5stR': 'R5stR.md' - - 'R6AL': 'R6AL.md' - - 'R6AR': 'R6AR.md' - - 'R6BL': 'R6BL.md' - - 'R6BR': 'R6BR.md' - 'R6shL': 'R6shL.md' - 'R6shR': 'R6shR.md' - 'R6stL': 'R6stL.md' - 'R6stR': 'R6stR.md' - - 'R7AL': 'R7AL.md' - - 'R7AR': 'R7AR.md' - - 'R7BL': 'R7BL.md' - - 'R7BR': 'R7BR.md' - 'R7shL': 'R7shL.md' - 'R7shR': 'R7shR.md' - 'R7stL': 'R7stL.md' - 'R7stR': 'R7stR.md' - - 'R8AL': 'R8AL.md' - - 'R8AR': 'R8AR.md' - - 'R8BL': 'R8BL.md' - - 'R8BR': 'R8BR.md' - 'R8shL': 'R8shL.md' - 'R8shR': 'R8shR.md' - 'R8stL': 'R8stL.md' - 'R8stR': 'R8stR.md' - - 'R9AL': 'R9AL.md' - - 'R9AR': 'R9AR.md' - - 'R9BL': 'R9BL.md' - - 'R9BR': 'R9BR.md' - 'R9shL': 'R9shL.md' - 'R9shR': 'R9shR.md' - 'R9stL': 'R9stL.md' - 'R9stR': 'R9stR.md' - - 'SPCL': 'SPCL.md' - - 'SPCR': 'SPCR.md' - - 'SPDL': 'SPDL.md' - - 'SPDR': 'SPDR.md' - - 'SPVL': 'SPVL.md' - - 'SPVR': 'SPVR.md' - - 'bm': 'bm.md' - - 'e2D': 'e2D.md' - - 'e2DL': 'e2DL.md' - - 'e2DR': 'e2DR.md' - - 'e2V': 'e2V.md' - - 'e2VL': 'e2VL.md' - - 'e2VR': 'e2VR.md' - - 'e3D': 'e3D.md' - - 'e3VL': 'e3VL.md' - - 'e3VR': 'e3VR.md' - - 'exc_cell': 'exc_cell.md' - - 'exc_gl': 'exc_gl.md' - - 'g1AL': 'g1AL.md' - - 'g1AR': 'g1AR.md' - - 'g1P': 'g1P.md' - - 'g1p': 'g1p.md' - - 'g2L': 'g2L.md' - - 'g2R': 'g2R.md' - - 'gonad': 'gonad.md' - - 'hmc': 'hmc.md' - - 'hyp': 'hyp.md' - - 'int': 'int.md' - - 'mc1DL': 'mc1DL.md' - - 'mc1DR': 'mc1DR.md' - - 'mc1V': 'mc1V.md' - - 'mc2DL': 'mc2DL.md' - - 'mc2DR': 'mc2DR.md' - - 'mc2V': 'mc2V.md' - - 'mc3DL': 'mc3DL.md' - - 'mc3DR': 'mc3DR.md' - - 'mc3V': 'mc3V.md' - - 'proctodeum': 'proctodeum.md' - Python package: - 'Installation': 'Python.md' - 'API Reference': "api/summary/" diff --git a/setup.cfg b/setup.cfg index 55b37cdb1..886ae0103 100644 --- a/setup.cfg +++ b/setup.cfg @@ -1,6 +1,6 @@ [metadata] name = cect -version = 0.2.1 +version = attr: cect.__version__ description = C. elegans Connectome Toolbox long_description = file: README.md long_description_content_type = text/markdown From 20a9945e39972cbcc82b987553855490ac386935 Mon Sep 17 00:00:00 2001 From: pgleeson Date: Fri, 15 Nov 2024 12:16:25 +0000 Subject: [PATCH 10/10] Remove generated files from commit --- docs/Bentley2016_MA_data.md | 349 ---------- docs/Bentley2016_MA_data_graph.md | 348 ---------- docs/Bentley2016_MA_data_hiveplot.md | 349 ---------- docs/Bentley2016_PEP_data.md | 349 ---------- docs/Bentley2016_PEP_data_graph.md | 348 ---------- docs/Bentley2016_PEP_data_hiveplot.md | 349 ---------- docs/Cook2019Herm_data.md | 530 -------------- docs/Cook2019Herm_data_graph.md | 528 -------------- docs/Cook2019Herm_data_hiveplot.md | 530 -------------- docs/Cook2019Male_data.md | 653 ------------------ docs/Cook2019Male_data_graph.md | 651 ----------------- docs/Cook2019Male_data_hiveplot.md | 653 ------------------ docs/Cook2020_data.md | 403 ----------- docs/Cook2020_data_graph.md | 401 ----------- docs/Cook2020_data_hiveplot.md | 403 ----------- docs/Full1_Bentley2016_MA_data.md | 349 ---------- docs/Full1_Bentley2016_MA_data_graph.md | 348 ---------- docs/Full1_Bentley2016_MA_data_hiveplot.md | 349 ---------- docs/Full1_Bentley2016_PEP_data.md | 349 ---------- docs/Full1_Bentley2016_PEP_data_graph.md | 348 ---------- docs/Full1_Bentley2016_PEP_data_hiveplot.md | 349 ---------- docs/Full1_Cook2019Herm_data.md | 530 -------------- docs/Full1_Cook2019Herm_data_graph.md | 528 -------------- docs/Full1_Cook2019Herm_data_hiveplot.md | 530 -------------- docs/Full1_Cook2019Male_data.md | 653 ------------------ docs/Full1_Cook2019Male_data_graph.md | 651 ----------------- docs/Full1_Cook2019Male_data_hiveplot.md | 653 ------------------ docs/Full1_Cook2020_data.md | 390 ----------- docs/Full1_Cook2020_data_graph.md | 390 ----------- docs/Full1_Cook2020_data_hiveplot.md | 390 ----------- docs/Full1_Randi2023_data.md | 349 ---------- docs/Full1_Randi2023_data_graph.md | 348 ---------- docs/Full1_Randi2023_data_hiveplot.md | 349 ---------- docs/Full1_RipollSanchezLongRange_data.md | 346 ---------- ...Full1_RipollSanchezLongRange_data_graph.md | 345 --------- ...l1_RipollSanchezLongRange_data_hiveplot.md | 346 ---------- docs/Full1_RipollSanchezMidRange_data.md | 346 ---------- .../Full1_RipollSanchezMidRange_data_graph.md | 345 --------- ...ll1_RipollSanchezMidRange_data_hiveplot.md | 346 ---------- docs/Full1_RipollSanchezShortRange_data.md | 346 ---------- ...ull1_RipollSanchezShortRange_data_graph.md | 345 --------- ...1_RipollSanchezShortRange_data_hiveplot.md | 346 ---------- docs/Full1_SSData_data.md | 456 ------------ docs/Full1_SSData_data_graph.md | 454 ------------ docs/Full1_SSData_data_hiveplot.md | 456 ------------ docs/Full1_UpdSSData2_data.md | 454 ------------ docs/Full1_UpdSSData2_data_graph.md | 452 ------------ docs/Full1_UpdSSData2_data_hiveplot.md | 454 ------------ docs/Full1_UpdSSData_data.md | 454 ------------ docs/Full1_UpdSSData_data_graph.md | 452 ------------ docs/Full1_UpdSSData_data_hiveplot.md | 454 ------------ docs/Full1_Varshney_data.md | 356 ---------- docs/Full1_Varshney_data_graph.md | 354 ---------- docs/Full1_Varshney_data_hiveplot.md | 356 ---------- docs/Full1_White_A_data.md | 403 ----------- docs/Full1_White_A_data_graph.md | 401 ----------- docs/Full1_White_A_data_hiveplot.md | 403 ----------- docs/Full1_White_L4_data.md | 399 ----------- docs/Full1_White_L4_data_graph.md | 397 ----------- docs/Full1_White_L4_data_hiveplot.md | 399 ----------- docs/Full1_White_whole_data.md | 371 ---------- docs/Full1_White_whole_data_graph.md | 369 ---------- docs/Full1_White_whole_data_hiveplot.md | 371 ---------- docs/Full1_Witvliet1_data.md | 388 ----------- docs/Full1_Witvliet1_data_graph.md | 386 ----------- docs/Full1_Witvliet1_data_hiveplot.md | 388 ----------- docs/Full1_Witvliet2_data.md | 394 ----------- docs/Full1_Witvliet2_data_graph.md | 392 ----------- docs/Full1_Witvliet2_data_hiveplot.md | 394 ----------- docs/Full1_Witvliet3_data.md | 398 ----------- docs/Full1_Witvliet3_data_graph.md | 396 ----------- docs/Full1_Witvliet3_data_hiveplot.md | 398 ----------- docs/Full1_Witvliet4_data.md | 398 ----------- docs/Full1_Witvliet4_data_graph.md | 396 ----------- docs/Full1_Witvliet4_data_hiveplot.md | 398 ----------- docs/Full1_Witvliet5_data.md | 399 ----------- docs/Full1_Witvliet5_data_graph.md | 397 ----------- docs/Full1_Witvliet5_data_hiveplot.md | 399 ----------- docs/Full1_Witvliet6_data.md | 403 ----------- docs/Full1_Witvliet6_data_graph.md | 401 ----------- docs/Full1_Witvliet6_data_hiveplot.md | 403 ----------- docs/Full1_Witvliet7_data.md | 403 ----------- docs/Full1_Witvliet7_data_graph.md | 401 ----------- docs/Full1_Witvliet7_data_hiveplot.md | 403 ----------- docs/Full1_Witvliet8_data.md | 401 ----------- docs/Full1_Witvliet8_data_graph.md | 399 ----------- docs/Full1_Witvliet8_data_hiveplot.md | 401 ----------- docs/Full1_WormNeuroAtlas_data.md | 356 ---------- docs/Full1_WormNeuroAtlas_data_graph.md | 354 ---------- docs/Full1_WormNeuroAtlas_data_hiveplot.md | 356 ---------- docs/Neurons_Bentley2016_MA_data.md | 349 ---------- docs/Neurons_Bentley2016_MA_data_graph.md | 348 ---------- docs/Neurons_Bentley2016_MA_data_hiveplot.md | 349 ---------- docs/Neurons_Bentley2016_PEP_data.md | 349 ---------- docs/Neurons_Bentley2016_PEP_data_graph.md | 348 ---------- docs/Neurons_Bentley2016_PEP_data_hiveplot.md | 349 ---------- docs/Neurons_Cook2019Herm_data.md | 530 -------------- docs/Neurons_Cook2019Herm_data_graph.md | 528 -------------- docs/Neurons_Cook2019Herm_data_hiveplot.md | 530 -------------- docs/Neurons_Cook2019Male_data.md | 653 ------------------ 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+++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Bentley2016_MA" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Brittin2021 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on monoaminergic connectivity from the WormNeuroAtlas package.   Reader: WormNeuroAtlasMAReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/Bentley2016_MA_Raw_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (233) -
Full list of Neurons (hermaphrodite only) in this dataset -ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AIYL - | AIYR - | AIZL - | AIZR - | ALML - | ALMR - | ALNL - | ALNR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASKL - | ASKR - | AUAL - | AUAR - | AVBL - | AVBR - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVL - | AVM - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVQL - | PVQR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIML - | RIMR - | RIS - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (69) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | AINL - | AINR - | ALA - | AQR - | ASJL - | ASJR - | AVAL - | AVAR - | AVDL - | AVDR - | AVEL - | AVER - | AVG - | AVKL - | AVKR - | AWAL - | AWAR - | AWCL - | AWCR - | CANL - | CANR - | DVB - | I5 - | MI - | PDB - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVR - | PVWL - | PVWR - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIPL - | RIPR - | RIR - | RIVL - | RIVR - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Bentley2016_MA_data_graph.md b/docs/Bentley2016_MA_data_graph.md deleted file mode 100644 index 3d8e793b4..000000000 --- a/docs/Bentley2016_MA_data_graph.md +++ /dev/null @@ -1,348 +0,0 @@ ---- -title: "Dataset: Bentley2016_MA" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Brittin2021 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on monoaminergic connectivity from the WormNeuroAtlas package.   Reader: WormNeuroAtlasMAReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/Bentley2016_MA_Raw_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (233) -
Full list of Neurons (hermaphrodite only) in this dataset -ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AIYL - | AIYR - | AIZL - | AIZR - | ALML - | ALMR - | ALNL - | ALNR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASKL - | ASKR - | AUAL - | AUAR - | AVBL - | AVBR - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVL - | AVM - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVQL - | PVQR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIML - | RIMR - | RIS - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (69) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | AINL - | AINR - | ALA - | AQR - | ASJL - | ASJR - | AVAL - | AVAR - | AVDL - | AVDR - | AVEL - | AVER - | AVG - | AVKL - | AVKR - | AWAL - | AWAR - | AWCL - | AWCR - | CANL - | CANR - | DVB - | I5 - | MI - | PDB - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVR - | PVWL - | PVWR - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIPL - | RIPR - | RIR - | RIVL - | RIVR - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Bentley2016_MA_data_hiveplot.md b/docs/Bentley2016_MA_data_hiveplot.md deleted file mode 100644 index c8461157d..000000000 --- a/docs/Bentley2016_MA_data_hiveplot.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Bentley2016_MA" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Brittin2021 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on monoaminergic connectivity from the WormNeuroAtlas package.   Reader: WormNeuroAtlasMAReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/Bentley2016_MA_Raw_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (233) -
Full list of Neurons (hermaphrodite only) in this dataset -ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AIYL - | AIYR - | AIZL - | AIZR - | ALML - | ALMR - | ALNL - | ALNR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASKL - | ASKR - | AUAL - | AUAR - | AVBL - | AVBR - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVL - | AVM - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVQL - | PVQR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIML - | RIMR - | RIS - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (69) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | AINL - | AINR - | ALA - | AQR - | ASJL - | ASJR - | AVAL - | AVAR - | AVDL - | AVDR - | AVEL - | AVER - | AVG - | AVKL - | AVKR - | AWAL - | AWAR - | AWCL - | AWCR - | CANL - | CANR - | DVB - | I5 - | MI - | PDB - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVR - | PVWL - | PVWR - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIPL - | RIPR - | RIR - | RIVL - | RIVR - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Bentley2016_PEP_data.md b/docs/Bentley2016_PEP_data.md deleted file mode 100644 index e1fe3d45a..000000000 --- a/docs/Bentley2016_PEP_data.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Bentley2016_PEP" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Brittin2021 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on peptidergic connectivity from the WormNeuroAtlas package.   Reader: WormNeuroAtlasPepReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/Bentley2016_PEP_Raw_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Bentley2016_PEP_data_graph.md b/docs/Bentley2016_PEP_data_graph.md deleted file mode 100644 index b9d87cfd4..000000000 --- a/docs/Bentley2016_PEP_data_graph.md +++ /dev/null @@ -1,348 +0,0 @@ ---- -title: "Dataset: Bentley2016_PEP" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Brittin2021 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on peptidergic connectivity from the WormNeuroAtlas package.   Reader: WormNeuroAtlasPepReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/Bentley2016_PEP_Raw_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Bentley2016_PEP_data_hiveplot.md b/docs/Bentley2016_PEP_data_hiveplot.md deleted file mode 100644 index 56f9fb376..000000000 --- a/docs/Bentley2016_PEP_data_hiveplot.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Bentley2016_PEP" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Brittin2021 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on peptidergic connectivity from the WormNeuroAtlas package.   Reader: WormNeuroAtlasPepReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/Bentley2016_PEP_Raw_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Cook2019Herm_data.md b/docs/Cook2019Herm_data.md deleted file mode 100644 index b2a7ec7db..000000000 --- a/docs/Cook2019Herm_data.md +++ /dev/null @@ -1,530 +0,0 @@ ---- -title: "Dataset: Cook2019Herm" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of hermaphrodite.   Reader: Cook2019HermReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Cook2019Herm_Raw_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2019Herm_Raw_Electrical.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (135) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | um1AL - | um1AR - | um1PL - | um1PR - | um2AL - | um2AR - | um2PL - | um2PR - | vm1AL - | vm1AR - | vm1PL - | vm1PR - | vm2AL - | vm2AR - | vm2PL - | vm2PR - -
- -### Other cells (36) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | hmc - | hyp - | int - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Cook2019Herm_data_graph.md b/docs/Cook2019Herm_data_graph.md deleted file mode 100644 index 2e92521b2..000000000 --- a/docs/Cook2019Herm_data_graph.md +++ /dev/null @@ -1,528 +0,0 @@ ---- -title: "Dataset: Cook2019Herm" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of hermaphrodite.   Reader: Cook2019HermReader

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Cook2019Herm_Raw_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Cook2019Herm_Raw_Electrical_graph.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (135) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | um1AL - | um1AR - | um1PL - | um1PR - | um2AL - | um2AR - | um2PL - | um2PR - | vm1AL - | vm1AR - | vm1PL - | vm1PR - | vm2AL - | vm2AR - | vm2PL - | vm2PR - -
- -### Other cells (36) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | hmc - | hyp - | int - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Cook2019Herm_data_hiveplot.md b/docs/Cook2019Herm_data_hiveplot.md deleted file mode 100644 index 9dcf7b703..000000000 --- a/docs/Cook2019Herm_data_hiveplot.md +++ /dev/null @@ -1,530 +0,0 @@ ---- -title: "Dataset: Cook2019Herm" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of hermaphrodite.   Reader: Cook2019HermReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Cook2019Herm_Raw_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2019Herm_Raw_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (135) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | um1AL - | um1AR - | um1PL - | um1PR - | um2AL - | um2AR - | um2PL - | um2PR - | vm1AL - | vm1AR - | vm1PL - | vm1PR - | vm2AL - | vm2AR - | vm2PL - | vm2PR - -
- -### Other cells (36) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | hmc - | hyp - | int - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Cook2019Male_data.md b/docs/Cook2019Male_data.md deleted file mode 100644 index 32a8f19d5..000000000 --- a/docs/Cook2019Male_data.md +++ /dev/null @@ -1,653 +0,0 @@ ---- -title: "Dataset: Cook2019Male" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of male.   Reader: Cook2019MaleReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Cook2019Male_Raw_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2019Male_Raw_Electrical.json" } - ``` - - -### Neurons (herm) (292) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (10) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAR - | BAGR - | HSNL - | HSNR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (156) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | ailL - | ailR - | aobL - | aobR - | cdlL - | cdlR - | dglL1 - | dglL2 - | dglL3 - | dglL4 - | dglL5 - | dglL6 - | dglL7 - | dglR1 - | dglR2 - | dglR3 - | dglR4 - | dglR5 - | dglR6 - | dglR7 - | dglR8 - | dspL - | dspR - | dsrL - | dsrR - | gecL - | gecR - | grtL - | grtR - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | pobL - | pobR - | polL - | polR - | vspL - | vspR - | vsrL - | vsrR - -
- -### Other cells (135) -
Full list of Other cells in this dataset -CA02 - | CA03 - | CA04 - | CA05 - | CA06 - | CA07 - | CA08 - | CA09 - | CEMDL - | CEMDR - | CEMVL - | CEMVR - | CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | CP01 - | CP02 - | CP03 - | CP04 - | CP05 - | CP06 - | CP07 - | CP08 - | CP09 - | DVE - | DVF - | DX1 - | DX2 - | DX3 - | EF1 - | EF2 - | EF3 - | GLRDR - | GLRVL - | GLRVR - | HOA - | HOB - | MCML - | MCMR - | PCAL - | PCAR - | PCBL - | PCBR - | PCCL - | PCCR - | PDC - | PGA - | PHDL - | PHDR - | PVV - | PVX - | PVY - | PVZ - | R1AL - | R1AR - | R1BL - | R1BR - | R1shL - | R1shR - | R2AL - | R2AR - | R2BL - | R2BR - | R2shL - | R2shR - | R3AL - | R3AR - | R3BL - | R3BR - | R3shL - | R3shR - | R4AL - | R4AR - | R4BL - | R4BR - | R4shL - | R5AL - | R5AR - | R5BL - | R5BR - | R5shL - | R5shR - | R6AL - | R6AR - | R6BL - | R6BR - | R7AL - | R7AR - | R7BL - | R7BR - | R7shL - | R7shR - | R8AL - | R8AR - | R8BL - | R8BR - | R9AL - | R9AR - | R9BL - | R9BR - | R9shL - | SPCL - | SPCR - | SPDL - | SPDR - | SPVL - | SPVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | gonad - | hmc - | hyp - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - | proctodeum - -
diff --git a/docs/Cook2019Male_data_graph.md b/docs/Cook2019Male_data_graph.md deleted file mode 100644 index 712132b0b..000000000 --- a/docs/Cook2019Male_data_graph.md +++ /dev/null @@ -1,651 +0,0 @@ ---- -title: "Dataset: Cook2019Male" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of male.   Reader: Cook2019MaleReader

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Cook2019Male_Raw_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Cook2019Male_Raw_Electrical_graph.json" } - ``` - - -### Neurons (herm) (292) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (10) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAR - | BAGR - | HSNL - | HSNR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (156) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | ailL - | ailR - | aobL - | aobR - | cdlL - | cdlR - | dglL1 - | dglL2 - | dglL3 - | dglL4 - | dglL5 - | dglL6 - | dglL7 - | dglR1 - | dglR2 - | dglR3 - | dglR4 - | dglR5 - | dglR6 - | dglR7 - | dglR8 - | dspL - | dspR - | dsrL - | dsrR - | gecL - | gecR - | grtL - | grtR - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | pobL - | pobR - | polL - | polR - | vspL - | vspR - | vsrL - | vsrR - -
- -### Other cells (135) -
Full list of Other cells in this dataset -CA02 - | CA03 - | CA04 - | CA05 - | CA06 - | CA07 - | CA08 - | CA09 - | CEMDL - | CEMDR - | CEMVL - | CEMVR - | CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | CP01 - | CP02 - | CP03 - | CP04 - | CP05 - | CP06 - | CP07 - | CP08 - | CP09 - | DVE - | DVF - | DX1 - | DX2 - | DX3 - | EF1 - | EF2 - | EF3 - | GLRDR - | GLRVL - | GLRVR - | HOA - | HOB - | MCML - | MCMR - | PCAL - | PCAR - | PCBL - | PCBR - | PCCL - | PCCR - | PDC - | PGA - | PHDL - | PHDR - | PVV - | PVX - | PVY - | PVZ - | R1AL - | R1AR - | R1BL - | R1BR - | R1shL - | R1shR - | R2AL - | R2AR - | R2BL - | R2BR - | R2shL - | R2shR - | R3AL - | R3AR - | R3BL - | R3BR - | R3shL - | R3shR - | R4AL - | R4AR - | R4BL - | R4BR - | R4shL - | R5AL - | R5AR - | R5BL - | R5BR - | R5shL - | R5shR - | R6AL - | R6AR - | R6BL - | R6BR - | R7AL - | R7AR - | R7BL - | R7BR - | R7shL - | R7shR - | R8AL - | R8AR - | R8BL - | R8BR - | R9AL - | R9AR - | R9BL - | R9BR - | R9shL - | SPCL - | SPCR - | SPDL - | SPDR - | SPVL - | SPVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | gonad - | hmc - | hyp - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - | proctodeum - -
diff --git a/docs/Cook2019Male_data_hiveplot.md b/docs/Cook2019Male_data_hiveplot.md deleted file mode 100644 index 140351821..000000000 --- a/docs/Cook2019Male_data_hiveplot.md +++ /dev/null @@ -1,653 +0,0 @@ ---- -title: "Dataset: Cook2019Male" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of male.   Reader: Cook2019MaleReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Cook2019Male_Raw_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2019Male_Raw_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (292) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (10) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAR - | BAGR - | HSNL - | HSNR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (156) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | ailL - | ailR - | aobL - | aobR - | cdlL - | cdlR - | dglL1 - | dglL2 - | dglL3 - | dglL4 - | dglL5 - | dglL6 - | dglL7 - | dglR1 - | dglR2 - | dglR3 - | dglR4 - | dglR5 - | dglR6 - | dglR7 - | dglR8 - | dspL - | dspR - | dsrL - | dsrR - | gecL - | gecR - | grtL - | grtR - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | pobL - | pobR - | polL - | polR - | vspL - | vspR - | vsrL - | vsrR - -
- -### Other cells (135) -
Full list of Other cells in this dataset -CA02 - | CA03 - | CA04 - | CA05 - | CA06 - | CA07 - | CA08 - | CA09 - | CEMDL - | CEMDR - | CEMVL - | CEMVR - | CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | CP01 - | CP02 - | CP03 - | CP04 - | CP05 - | CP06 - | CP07 - | CP08 - | CP09 - | DVE - | DVF - | DX1 - | DX2 - | DX3 - | EF1 - | EF2 - | EF3 - | GLRDR - | GLRVL - | GLRVR - | HOA - | HOB - | MCML - | MCMR - | PCAL - | PCAR - | PCBL - | PCBR - | PCCL - | PCCR - | PDC - | PGA - | PHDL - | PHDR - | PVV - | PVX - | PVY - | PVZ - | R1AL - | R1AR - | R1BL - | R1BR - | R1shL - | R1shR - | R2AL - | R2AR - | R2BL - | R2BR - | R2shL - | R2shR - | R3AL - | R3AR - | R3BL - | R3BR - | R3shL - | R3shR - | R4AL - | R4AR - | R4BL - | R4BR - | R4shL - | R5AL - | R5AR - | R5BL - | R5BR - | R5shL - | R5shR - | R6AL - | R6AR - | R6BL - | R6BR - | R7AL - | R7AR - | R7BL - | R7BR - | R7shL - | R7shR - | R8AL - | R8AR - | R8BL - | R8BR - | R9AL - | R9AR - | R9BL - | R9BR - | R9shL - | SPCL - | SPCR - | SPDL - | SPDR - | SPVL - | SPVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | gonad - | hmc - | hyp - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - | proctodeum - -
diff --git a/docs/Cook2020_data.md b/docs/Cook2020_data.md deleted file mode 100644 index 642265630..000000000 --- a/docs/Cook2020_data.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Cook2020" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2020 -

Data extracted from cne24932-sup-0004-supinfo4.csv and cne24932-sup-0005-supinfo5.csv for connectivity of pharyngeal neurons, muscles and other cells.   Reader: Cook2020DataReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Cook2020_Raw_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2020_Raw_Electrical.json" } - ``` - - -### Neurons (herm) (22) -
Full list of Neurons (hermaphrodite only) in this dataset -I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | RIPL - | RIPR - -
- -### Missing neurons (280) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (20) -
Full list of Muscles in this dataset -pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - -
- -### Other cells (21) -
Full list of Other cells in this dataset -bm - | e2DL - | e2DR - | e2V - | e3D - | e3VL - | e3VR - | g1AL - | g1AR - | g1P - | g2L - | g2R - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Cook2020_data_graph.md b/docs/Cook2020_data_graph.md deleted file mode 100644 index 6c6e7c37e..000000000 --- a/docs/Cook2020_data_graph.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: Cook2020" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2020 -

Data extracted from cne24932-sup-0004-supinfo4.csv and cne24932-sup-0005-supinfo5.csv for connectivity of pharyngeal neurons, muscles and other cells.   Reader: Cook2020DataReader

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Cook2020_Raw_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Cook2020_Raw_Electrical_graph.json" } - ``` - - -### Neurons (herm) (22) -
Full list of Neurons (hermaphrodite only) in this dataset -I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | RIPL - | RIPR - -
- -### Missing neurons (280) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (20) -
Full list of Muscles in this dataset -pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - -
- -### Other cells (21) -
Full list of Other cells in this dataset -bm - | e2DL - | e2DR - | e2V - | e3D - | e3VL - | e3VR - | g1AL - | g1AR - | g1P - | g2L - | g2R - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Cook2020_data_hiveplot.md b/docs/Cook2020_data_hiveplot.md deleted file mode 100644 index 07bdae843..000000000 --- a/docs/Cook2020_data_hiveplot.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Cook2020" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2020 -

Data extracted from cne24932-sup-0004-supinfo4.csv and cne24932-sup-0005-supinfo5.csv for connectivity of pharyngeal neurons, muscles and other cells.   Reader: Cook2020DataReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Cook2020_Raw_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2020_Raw_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (22) -
Full list of Neurons (hermaphrodite only) in this dataset -I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | RIPL - | RIPR - -
- -### Missing neurons (280) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (20) -
Full list of Muscles in this dataset -pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - -
- -### Other cells (21) -
Full list of Other cells in this dataset -bm - | e2DL - | e2DR - | e2V - | e3D - | e3VL - | e3VR - | g1AL - | g1AR - | g1P - | g2L - | g2R - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Full1_Bentley2016_MA_data.md b/docs/Full1_Bentley2016_MA_data.md deleted file mode 100644 index eb9c119da..000000000 --- a/docs/Full1_Bentley2016_MA_data.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Bentley2016_MA" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on monoaminergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasMAReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/Bentley2016_MA_Full1_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (233) -
Full list of Neurons (hermaphrodite only) in this dataset -ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AIYL - | AIYR - | AIZL - | AIZR - | ALML - | ALMR - | ALNL - | ALNR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASKL - | ASKR - | AUAL - | AUAR - | AVBL - | AVBR - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVL - | AVM - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVQL - | PVQR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIML - | RIMR - | RIS - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (69) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | AINL - | AINR - | ALA - | AQR - | ASJL - | ASJR - | AVAL - | AVAR - | AVDL - | AVDR - | AVEL - | AVER - | AVG - | AVKL - | AVKR - | AWAL - | AWAR - | AWCL - | AWCR - | CANL - | CANR - | DVB - | I5 - | MI - | PDB - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVR - | PVWL - | PVWR - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIPL - | RIPR - | RIR - | RIVL - | RIVR - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_Bentley2016_MA_data_graph.md b/docs/Full1_Bentley2016_MA_data_graph.md deleted file mode 100644 index 7ac73f7eb..000000000 --- a/docs/Full1_Bentley2016_MA_data_graph.md +++ /dev/null @@ -1,348 +0,0 @@ ---- -title: "Dataset: Bentley2016_MA" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on monoaminergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasMAReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/Bentley2016_MA_Full1_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (233) -
Full list of Neurons (hermaphrodite only) in this dataset -ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AIYL - | AIYR - | AIZL - | AIZR - | ALML - | ALMR - | ALNL - | ALNR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASKL - | ASKR - | AUAL - | AUAR - | AVBL - | AVBR - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVL - | AVM - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVQL - | PVQR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIML - | RIMR - | RIS - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (69) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | AINL - | AINR - | ALA - | AQR - | ASJL - | ASJR - | AVAL - | AVAR - | AVDL - | AVDR - | AVEL - | AVER - | AVG - | AVKL - | AVKR - | AWAL - | AWAR - | AWCL - | AWCR - | CANL - | CANR - | DVB - | I5 - | MI - | PDB - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVR - | PVWL - | PVWR - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIPL - | RIPR - | RIR - | RIVL - | RIVR - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_Bentley2016_MA_data_hiveplot.md b/docs/Full1_Bentley2016_MA_data_hiveplot.md deleted file mode 100644 index 108cd46e5..000000000 --- a/docs/Full1_Bentley2016_MA_data_hiveplot.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Bentley2016_MA" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on monoaminergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasMAReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/Bentley2016_MA_Full1_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (233) -
Full list of Neurons (hermaphrodite only) in this dataset -ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AIYL - | AIYR - | AIZL - | AIZR - | ALML - | ALMR - | ALNL - | ALNR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASKL - | ASKR - | AUAL - | AUAR - | AVBL - | AVBR - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVL - | AVM - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVQL - | PVQR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIML - | RIMR - | RIS - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (69) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | AINL - | AINR - | ALA - | AQR - | ASJL - | ASJR - | AVAL - | AVAR - | AVDL - | AVDR - | AVEL - | AVER - | AVG - | AVKL - | AVKR - | AWAL - | AWAR - | AWCL - | AWCR - | CANL - | CANR - | DVB - | I5 - | MI - | PDB - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVR - | PVWL - | PVWR - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIPL - | RIPR - | RIR - | RIVL - | RIVR - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_Bentley2016_PEP_data.md b/docs/Full1_Bentley2016_PEP_data.md deleted file mode 100644 index f8ab48603..000000000 --- a/docs/Full1_Bentley2016_PEP_data.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Bentley2016_PEP" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on peptidergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasPepReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/Bentley2016_PEP_Full1_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_Bentley2016_PEP_data_graph.md b/docs/Full1_Bentley2016_PEP_data_graph.md deleted file mode 100644 index d7b1d6434..000000000 --- a/docs/Full1_Bentley2016_PEP_data_graph.md +++ /dev/null @@ -1,348 +0,0 @@ ---- -title: "Dataset: Bentley2016_PEP" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on peptidergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasPepReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/Bentley2016_PEP_Full1_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_Bentley2016_PEP_data_hiveplot.md b/docs/Full1_Bentley2016_PEP_data_hiveplot.md deleted file mode 100644 index 0c8e8f7ff..000000000 --- a/docs/Full1_Bentley2016_PEP_data_hiveplot.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Bentley2016_PEP" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on peptidergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasPepReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/Bentley2016_PEP_Full1_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_Cook2019Herm_data.md b/docs/Full1_Cook2019Herm_data.md deleted file mode 100644 index 2feca5a89..000000000 --- a/docs/Full1_Cook2019Herm_data.md +++ /dev/null @@ -1,530 +0,0 @@ ---- -title: "Dataset: Cook2019Herm" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of hermaphrodite.   Reader: Cook2019HermReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Cook2019Herm_Full1_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2019Herm_Full1_Electrical.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (135) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | um1AL - | um1AR - | um1PL - | um1PR - | um2AL - | um2AR - | um2PL - | um2PR - | vm1AL - | vm1AR - | vm1PL - | vm1PR - | vm2AL - | vm2AR - | vm2PL - | vm2PR - -
- -### Other cells (36) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | hmc - | hyp - | int - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Full1_Cook2019Herm_data_graph.md b/docs/Full1_Cook2019Herm_data_graph.md deleted file mode 100644 index 4a7197367..000000000 --- a/docs/Full1_Cook2019Herm_data_graph.md +++ /dev/null @@ -1,528 +0,0 @@ ---- -title: "Dataset: Cook2019Herm" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of hermaphrodite.   Reader: Cook2019HermReader

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Cook2019Herm_Full1_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Cook2019Herm_Full1_Electrical_graph.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (135) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | um1AL - | um1AR - | um1PL - | um1PR - | um2AL - | um2AR - | um2PL - | um2PR - | vm1AL - | vm1AR - | vm1PL - | vm1PR - | vm2AL - | vm2AR - | vm2PL - | vm2PR - -
- -### Other cells (36) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | hmc - | hyp - | int - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Full1_Cook2019Herm_data_hiveplot.md b/docs/Full1_Cook2019Herm_data_hiveplot.md deleted file mode 100644 index d71610a1f..000000000 --- a/docs/Full1_Cook2019Herm_data_hiveplot.md +++ /dev/null @@ -1,530 +0,0 @@ ---- -title: "Dataset: Cook2019Herm" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of hermaphrodite.   Reader: Cook2019HermReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Cook2019Herm_Full1_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2019Herm_Full1_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (135) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | um1AL - | um1AR - | um1PL - | um1PR - | um2AL - | um2AR - | um2PL - | um2PR - | vm1AL - | vm1AR - | vm1PL - | vm1PR - | vm2AL - | vm2AR - | vm2PL - | vm2PR - -
- -### Other cells (36) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | hmc - | hyp - | int - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Full1_Cook2019Male_data.md b/docs/Full1_Cook2019Male_data.md deleted file mode 100644 index ef2f6066c..000000000 --- a/docs/Full1_Cook2019Male_data.md +++ /dev/null @@ -1,653 +0,0 @@ ---- -title: "Dataset: Cook2019Male" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of male.   Reader: Cook2019MaleReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Cook2019Male_Full1_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2019Male_Full1_Electrical.json" } - ``` - - -### Neurons (herm) (292) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (10) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAR - | BAGR - | HSNL - | HSNR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (156) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | ailL - | ailR - | aobL - | aobR - | cdlL - | cdlR - | dglL1 - | dglL2 - | dglL3 - | dglL4 - | dglL5 - | dglL6 - | dglL7 - | dglR1 - | dglR2 - | dglR3 - | dglR4 - | dglR5 - | dglR6 - | dglR7 - | dglR8 - | dspL - | dspR - | dsrL - | dsrR - | gecL - | gecR - | grtL - | grtR - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | pobL - | pobR - | polL - | polR - | vspL - | vspR - | vsrL - | vsrR - -
- -### Other cells (135) -
Full list of Other cells in this dataset -CA02 - | CA03 - | CA04 - | CA05 - | CA06 - | CA07 - | CA08 - | CA09 - | CEMDL - | CEMDR - | CEMVL - | CEMVR - | CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | CP01 - | CP02 - | CP03 - | CP04 - | CP05 - | CP06 - | CP07 - | CP08 - | CP09 - | DVE - | DVF - | DX1 - | DX2 - | DX3 - | EF1 - | EF2 - | EF3 - | GLRDR - | GLRVL - | GLRVR - | HOA - | HOB - | MCML - | MCMR - | PCAL - | PCAR - | PCBL - | PCBR - | PCCL - | PCCR - | PDC - | PGA - | PHDL - | PHDR - | PVV - | PVX - | PVY - | PVZ - | R1AL - | R1AR - | R1BL - | R1BR - | R1shL - | R1shR - | R2AL - | R2AR - | R2BL - | R2BR - | R2shL - | R2shR - | R3AL - | R3AR - | R3BL - | R3BR - | R3shL - | R3shR - | R4AL - | R4AR - | R4BL - | R4BR - | R4shL - | R5AL - | R5AR - | R5BL - | R5BR - | R5shL - | R5shR - | R6AL - | R6AR - | R6BL - | R6BR - | R7AL - | R7AR - | R7BL - | R7BR - | R7shL - | R7shR - | R8AL - | R8AR - | R8BL - | R8BR - | R9AL - | R9AR - | R9BL - | R9BR - | R9shL - | SPCL - | SPCR - | SPDL - | SPDR - | SPVL - | SPVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | gonad - | hmc - | hyp - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - | proctodeum - -
diff --git a/docs/Full1_Cook2019Male_data_graph.md b/docs/Full1_Cook2019Male_data_graph.md deleted file mode 100644 index eb044a747..000000000 --- a/docs/Full1_Cook2019Male_data_graph.md +++ /dev/null @@ -1,651 +0,0 @@ ---- -title: "Dataset: Cook2019Male" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of male.   Reader: Cook2019MaleReader

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Cook2019Male_Full1_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Cook2019Male_Full1_Electrical_graph.json" } - ``` - - -### Neurons (herm) (292) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (10) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAR - | BAGR - | HSNL - | HSNR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (156) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | ailL - | ailR - | aobL - | aobR - | cdlL - | cdlR - | dglL1 - | dglL2 - | dglL3 - | dglL4 - | dglL5 - | dglL6 - | dglL7 - | dglR1 - | dglR2 - | dglR3 - | dglR4 - | dglR5 - | dglR6 - | dglR7 - | dglR8 - | dspL - | dspR - | dsrL - | dsrR - | gecL - | gecR - | grtL - | grtR - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | pobL - | pobR - | polL - | polR - | vspL - | vspR - | vsrL - | vsrR - -
- -### Other cells (135) -
Full list of Other cells in this dataset -CA02 - | CA03 - | CA04 - | CA05 - | CA06 - | CA07 - | CA08 - | CA09 - | CEMDL - | CEMDR - | CEMVL - | CEMVR - | CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | CP01 - | CP02 - | CP03 - | CP04 - | CP05 - | CP06 - | CP07 - | CP08 - | CP09 - | DVE - | DVF - | DX1 - | DX2 - | DX3 - | EF1 - | EF2 - | EF3 - | GLRDR - | GLRVL - | GLRVR - | HOA - | HOB - | MCML - | MCMR - | PCAL - | PCAR - | PCBL - | PCBR - | PCCL - | PCCR - | PDC - | PGA - | PHDL - | PHDR - | PVV - | PVX - | PVY - | PVZ - | R1AL - | R1AR - | R1BL - | R1BR - | R1shL - | R1shR - | R2AL - | R2AR - | R2BL - | R2BR - | R2shL - | R2shR - | R3AL - | R3AR - | R3BL - | R3BR - | R3shL - | R3shR - | R4AL - | R4AR - | R4BL - | R4BR - | R4shL - | R5AL - | R5AR - | R5BL - | R5BR - | R5shL - | R5shR - | R6AL - | R6AR - | R6BL - | R6BR - | R7AL - | R7AR - | R7BL - | R7BR - | R7shL - | R7shR - | R8AL - | R8AR - | R8BL - | R8BR - | R9AL - | R9AR - | R9BL - | R9BR - | R9shL - | SPCL - | SPCR - | SPDL - | SPDR - | SPVL - | SPVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | gonad - | hmc - | hyp - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - | proctodeum - -
diff --git a/docs/Full1_Cook2019Male_data_hiveplot.md b/docs/Full1_Cook2019Male_data_hiveplot.md deleted file mode 100644 index f8e66f483..000000000 --- a/docs/Full1_Cook2019Male_data_hiveplot.md +++ /dev/null @@ -1,653 +0,0 @@ ---- -title: "Dataset: Cook2019Male" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of male.   Reader: Cook2019MaleReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Cook2019Male_Full1_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2019Male_Full1_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (292) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (10) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAR - | BAGR - | HSNL - | HSNR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (156) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | ailL - | ailR - | aobL - | aobR - | cdlL - | cdlR - | dglL1 - | dglL2 - | dglL3 - | dglL4 - | dglL5 - | dglL6 - | dglL7 - | dglR1 - | dglR2 - | dglR3 - | dglR4 - | dglR5 - | dglR6 - | dglR7 - | dglR8 - | dspL - | dspR - | dsrL - | dsrR - | gecL - | gecR - | grtL - | grtR - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | pobL - | pobR - | polL - | polR - | vspL - | vspR - | vsrL - | vsrR - -
- -### Other cells (135) -
Full list of Other cells in this dataset -CA02 - | CA03 - | CA04 - | CA05 - | CA06 - | CA07 - | CA08 - | CA09 - | CEMDL - | CEMDR - | CEMVL - | CEMVR - | CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | CP01 - | CP02 - | CP03 - | CP04 - | CP05 - | CP06 - | CP07 - | CP08 - | CP09 - | DVE - | DVF - | DX1 - | DX2 - | DX3 - | EF1 - | EF2 - | EF3 - | GLRDR - | GLRVL - | GLRVR - | HOA - | HOB - | MCML - | MCMR - | PCAL - | PCAR - | PCBL - | PCBR - | PCCL - | PCCR - | PDC - | PGA - | PHDL - | PHDR - | PVV - | PVX - | PVY - | PVZ - | R1AL - | R1AR - | R1BL - | R1BR - | R1shL - | R1shR - | R2AL - | R2AR - | R2BL - | R2BR - | R2shL - | R2shR - | R3AL - | R3AR - | R3BL - | R3BR - | R3shL - | R3shR - | R4AL - | R4AR - | R4BL - | R4BR - | R4shL - | R5AL - | R5AR - | R5BL - | R5BR - | R5shL - | R5shR - | R6AL - | R6AR - | R6BL - | R6BR - | R7AL - | R7AR - | R7BL - | R7BR - | R7shL - | R7shR - | R8AL - | R8AR - | R8BL - | R8BR - | R9AL - | R9AR - | R9BL - | R9BR - | R9shL - | SPCL - | SPCR - | SPDL - | SPDR - | SPVL - | SPVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | gonad - | hmc - | hyp - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - | proctodeum - -
diff --git a/docs/Full1_Cook2020_data.md b/docs/Full1_Cook2020_data.md deleted file mode 100644 index 2ef8ad0af..000000000 --- a/docs/Full1_Cook2020_data.md +++ /dev/null @@ -1,390 +0,0 @@ ---- -title: "Dataset: Cook2020" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2020 -

Data extracted from cne24932-sup-0004-supinfo4.csv and cne24932-sup-0005-supinfo5.csv for connectivity of pharyngeal neurons, muscles and other cells.   Reader: Cook2020DataReader

- -No connections present in this view - -### Neurons (herm) (22) -
Full list of Neurons (hermaphrodite only) in this dataset -I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | RIPL - | RIPR - -
- -### Missing neurons (280) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (20) -
Full list of Muscles in this dataset -pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - -
- -### Other cells (21) -
Full list of Other cells in this dataset -bm - | e2DL - | e2DR - | e2V - | e3D - | e3VL - | e3VR - | g1AL - | g1AR - | g1P - | g2L - | g2R - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Full1_Cook2020_data_graph.md b/docs/Full1_Cook2020_data_graph.md deleted file mode 100644 index 2c972b75f..000000000 --- a/docs/Full1_Cook2020_data_graph.md +++ /dev/null @@ -1,390 +0,0 @@ ---- -title: "Dataset: Cook2020" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2020 -

Data extracted from cne24932-sup-0004-supinfo4.csv and cne24932-sup-0005-supinfo5.csv for connectivity of pharyngeal neurons, muscles and other cells.   Reader: Cook2020DataReader

- -No connections present in this view - -### Neurons (herm) (22) -
Full list of Neurons (hermaphrodite only) in this dataset -I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | RIPL - | RIPR - -
- -### Missing neurons (280) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (20) -
Full list of Muscles in this dataset -pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - -
- -### Other cells (21) -
Full list of Other cells in this dataset -bm - | e2DL - | e2DR - | e2V - | e3D - | e3VL - | e3VR - | g1AL - | g1AR - | g1P - | g2L - | g2R - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Full1_Cook2020_data_hiveplot.md b/docs/Full1_Cook2020_data_hiveplot.md deleted file mode 100644 index 5f7454189..000000000 --- a/docs/Full1_Cook2020_data_hiveplot.md +++ /dev/null @@ -1,390 +0,0 @@ ---- -title: "Dataset: Cook2020" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2020 -

Data extracted from cne24932-sup-0004-supinfo4.csv and cne24932-sup-0005-supinfo5.csv for connectivity of pharyngeal neurons, muscles and other cells.   Reader: Cook2020DataReader

- -No connections present in this view - -### Neurons (herm) (22) -
Full list of Neurons (hermaphrodite only) in this dataset -I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | RIPL - | RIPR - -
- -### Missing neurons (280) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (20) -
Full list of Muscles in this dataset -pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - -
- -### Other cells (21) -
Full list of Other cells in this dataset -bm - | e2DL - | e2DR - | e2V - | e3D - | e3VL - | e3VR - | g1AL - | g1AR - | g1P - | g2L - | g2R - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Full1_Randi2023_data.md b/docs/Full1_Randi2023_data.md deleted file mode 100644 index 65a4d5aa8..000000000 --- a/docs/Full1_Randi2023_data.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Randi2023" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data on functional connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasFuncReader

- -=== "Functional" - -
- ```plotly - { "file_path": "./assets/Randi2023_Full1_Functional.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | AQR - | AS1 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DB1 - | DB2 - | DD1 - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SIADL - | SIAVL - | SIAVR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VB1 - | VB2 - | VD1 - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AIAL - | AIAR - | ALML - | ALMR - | ALNL - | ALNR - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVM - | BDUL - | BDUR - | CANL - | CANR - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | HSNL - | HSNR - | I5 - | LUAL - | LUAR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RMHR - | SDQL - | SDQR - | SIADR - | SIBDL - | SIBDR - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB10 - | VB11 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_Randi2023_data_graph.md b/docs/Full1_Randi2023_data_graph.md deleted file mode 100644 index d12447df4..000000000 --- a/docs/Full1_Randi2023_data_graph.md +++ /dev/null @@ -1,348 +0,0 @@ ---- -title: "Dataset: Randi2023" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data on functional connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasFuncReader

- -=== "Functional" - - ```plotly - { "file_path": "./assets/Randi2023_Full1_Functional_graph.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | AQR - | AS1 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DB1 - | DB2 - | DD1 - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SIADL - | SIAVL - | SIAVR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VB1 - | VB2 - | VD1 - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AIAL - | AIAR - | ALML - | ALMR - | ALNL - | ALNR - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVM - | BDUL - | BDUR - | CANL - | CANR - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | HSNL - | HSNR - | I5 - | LUAL - | LUAR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RMHR - | SDQL - | SDQR - | SIADR - | SIBDL - | SIBDR - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB10 - | VB11 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_Randi2023_data_hiveplot.md b/docs/Full1_Randi2023_data_hiveplot.md deleted file mode 100644 index fadd7b51d..000000000 --- a/docs/Full1_Randi2023_data_hiveplot.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Randi2023" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data on functional connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasFuncReader

- -=== "Functional" - -
- ```plotly - { "file_path": "./assets/Randi2023_Full1_Functional_hiveplot.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | AQR - | AS1 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DB1 - | DB2 - | DD1 - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SIADL - | SIAVL - | SIAVR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VB1 - | VB2 - | VD1 - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AIAL - | AIAR - | ALML - | ALMR - | ALNL - | ALNR - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVM - | BDUL - | BDUR - | CANL - | CANR - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | HSNL - | HSNR - | I5 - | LUAL - | LUAR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RMHR - | SDQL - | SDQR - | SIADR - | SIBDL - | SIBDR - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB10 - | VB11 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_RipollSanchezLongRange_data.md b/docs/Full1_RipollSanchezLongRange_data.md deleted file mode 100644 index f66f00188..000000000 --- a/docs/Full1_RipollSanchezLongRange_data.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezLongRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_long_range_model.csv for long range model of neuropedtidergic connectome.   Reader: RipollSanchezLongRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezLongRange_Full1_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_RipollSanchezLongRange_data_graph.md b/docs/Full1_RipollSanchezLongRange_data_graph.md deleted file mode 100644 index 03b42c8e4..000000000 --- a/docs/Full1_RipollSanchezLongRange_data_graph.md +++ /dev/null @@ -1,345 +0,0 @@ ---- -title: "Dataset: RipollSanchezLongRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_long_range_model.csv for long range model of neuropedtidergic connectome.   Reader: RipollSanchezLongRangeReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/RipollSanchezLongRange_Full1_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_RipollSanchezLongRange_data_hiveplot.md b/docs/Full1_RipollSanchezLongRange_data_hiveplot.md deleted file mode 100644 index 155b4bd78..000000000 --- a/docs/Full1_RipollSanchezLongRange_data_hiveplot.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezLongRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_long_range_model.csv for long range model of neuropedtidergic connectome.   Reader: RipollSanchezLongRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezLongRange_Full1_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_RipollSanchezMidRange_data.md b/docs/Full1_RipollSanchezMidRange_data.md deleted file mode 100644 index 7c29c4b58..000000000 --- a/docs/Full1_RipollSanchezMidRange_data.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezMidRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_mid_range_model.csv for mid range model of neuropedtidergic connectome.   Reader: RipollSanchezMidRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezMidRange_Full1_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_RipollSanchezMidRange_data_graph.md b/docs/Full1_RipollSanchezMidRange_data_graph.md deleted file mode 100644 index d859818e1..000000000 --- a/docs/Full1_RipollSanchezMidRange_data_graph.md +++ /dev/null @@ -1,345 +0,0 @@ ---- -title: "Dataset: RipollSanchezMidRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_mid_range_model.csv for mid range model of neuropedtidergic connectome.   Reader: RipollSanchezMidRangeReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/RipollSanchezMidRange_Full1_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_RipollSanchezMidRange_data_hiveplot.md b/docs/Full1_RipollSanchezMidRange_data_hiveplot.md deleted file mode 100644 index 3a1265662..000000000 --- a/docs/Full1_RipollSanchezMidRange_data_hiveplot.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezMidRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_mid_range_model.csv for mid range model of neuropedtidergic connectome.   Reader: RipollSanchezMidRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezMidRange_Full1_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_RipollSanchezShortRange_data.md b/docs/Full1_RipollSanchezShortRange_data.md deleted file mode 100644 index 83b70696e..000000000 --- a/docs/Full1_RipollSanchezShortRange_data.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezShortRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_short_range_model.csv for short range model of neuropedtidergic connectome.   Reader: RipollSanchezShortRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezShortRange_Full1_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_RipollSanchezShortRange_data_graph.md b/docs/Full1_RipollSanchezShortRange_data_graph.md deleted file mode 100644 index 48b483c6e..000000000 --- a/docs/Full1_RipollSanchezShortRange_data_graph.md +++ /dev/null @@ -1,345 +0,0 @@ ---- -title: "Dataset: RipollSanchezShortRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_short_range_model.csv for short range model of neuropedtidergic connectome.   Reader: RipollSanchezShortRangeReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/RipollSanchezShortRange_Full1_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_RipollSanchezShortRange_data_hiveplot.md b/docs/Full1_RipollSanchezShortRange_data_hiveplot.md deleted file mode 100644 index bc839b313..000000000 --- a/docs/Full1_RipollSanchezShortRange_data_hiveplot.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezShortRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_short_range_model.csv for short range model of neuropedtidergic connectome.   Reader: RipollSanchezShortRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezShortRange_Full1_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_SSData_data.md b/docs/Full1_SSData_data.md deleted file mode 100644 index d67025d87..000000000 --- a/docs/Full1_SSData_data.md +++ /dev/null @@ -1,456 +0,0 @@ ---- -title: "Dataset: SSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from CElegansNeuronTables.xls for neuronal connectivity. Note: legacy dataset (based on White_whole) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: SpreadsheetDataReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/SSData_Full1_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/SSData_Full1_Electrical.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (97) -
Full list of Muscles in this dataset -MANAL - | MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | MVULVA - -
- -### Other cells (0) diff --git a/docs/Full1_SSData_data_graph.md b/docs/Full1_SSData_data_graph.md deleted file mode 100644 index 6f0797df5..000000000 --- a/docs/Full1_SSData_data_graph.md +++ /dev/null @@ -1,454 +0,0 @@ ---- -title: "Dataset: SSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from CElegansNeuronTables.xls for neuronal connectivity. Note: legacy dataset (based on White_whole) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: SpreadsheetDataReader

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/SSData_Full1_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/SSData_Full1_Electrical_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (97) -
Full list of Muscles in this dataset -MANAL - | MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | MVULVA - -
- -### Other cells (0) diff --git a/docs/Full1_SSData_data_hiveplot.md b/docs/Full1_SSData_data_hiveplot.md deleted file mode 100644 index 90c75d9f0..000000000 --- a/docs/Full1_SSData_data_hiveplot.md +++ /dev/null @@ -1,456 +0,0 @@ ---- -title: "Dataset: SSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from CElegansNeuronTables.xls for neuronal connectivity. Note: legacy dataset (based on White_whole) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: SpreadsheetDataReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/SSData_Full1_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/SSData_Full1_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (97) -
Full list of Muscles in this dataset -MANAL - | MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | MVULVA - -
- -### Other cells (0) diff --git a/docs/Full1_UpdSSData2_data.md b/docs/Full1_UpdSSData2_data.md deleted file mode 100644 index e0c128ba0..000000000 --- a/docs/Full1_UpdSSData2_data.md +++ /dev/null @@ -1,454 +0,0 @@ ---- -title: "Dataset: UpdSSData2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist_MODIFIED.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader2

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Full1_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Full1_Electrical.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Full1_UpdSSData2_data_graph.md b/docs/Full1_UpdSSData2_data_graph.md deleted file mode 100644 index 940b45981..000000000 --- a/docs/Full1_UpdSSData2_data_graph.md +++ /dev/null @@ -1,452 +0,0 @@ ---- -title: "Dataset: UpdSSData2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist_MODIFIED.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader2

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/UpdSSData2_Full1_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/UpdSSData2_Full1_Electrical_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Full1_UpdSSData2_data_hiveplot.md b/docs/Full1_UpdSSData2_data_hiveplot.md deleted file mode 100644 index 8c58b93f4..000000000 --- a/docs/Full1_UpdSSData2_data_hiveplot.md +++ /dev/null @@ -1,454 +0,0 @@ ---- -title: "Dataset: UpdSSData2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist_MODIFIED.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader2

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Full1_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Full1_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Full1_UpdSSData_data.md b/docs/Full1_UpdSSData_data.md deleted file mode 100644 index cc795b10b..000000000 --- a/docs/Full1_UpdSSData_data.md +++ /dev/null @@ -1,454 +0,0 @@ ---- -title: "Dataset: UpdSSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Full1_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Full1_Electrical.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Full1_UpdSSData_data_graph.md b/docs/Full1_UpdSSData_data_graph.md deleted file mode 100644 index 44328da90..000000000 --- a/docs/Full1_UpdSSData_data_graph.md +++ /dev/null @@ -1,452 +0,0 @@ ---- -title: "Dataset: UpdSSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/UpdSSData_Full1_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/UpdSSData_Full1_Electrical_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Full1_UpdSSData_data_hiveplot.md b/docs/Full1_UpdSSData_data_hiveplot.md deleted file mode 100644 index 5bad93c55..000000000 --- a/docs/Full1_UpdSSData_data_hiveplot.md +++ /dev/null @@ -1,454 +0,0 @@ ---- -title: "Dataset: UpdSSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Full1_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Full1_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Full1_Varshney_data.md b/docs/Full1_Varshney_data.md deleted file mode 100644 index af3e5eedc..000000000 --- a/docs/Full1_Varshney_data.md +++ /dev/null @@ -1,356 +0,0 @@ ---- -title: "Dataset: Varshney" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Varshney et al. 2011 -

Data extracted from NeuronConnectFormatted.xlsx for neuronal connectivity.   Reader: VarshneyDataReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Varshney_Full1_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Varshney_Full1_Electrical.json" } - ``` - - -### Neurons (herm) (279) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (23) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_Varshney_data_graph.md b/docs/Full1_Varshney_data_graph.md deleted file mode 100644 index 42d8b2ec9..000000000 --- a/docs/Full1_Varshney_data_graph.md +++ /dev/null @@ -1,354 +0,0 @@ ---- -title: "Dataset: Varshney" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Varshney et al. 2011 -

Data extracted from NeuronConnectFormatted.xlsx for neuronal connectivity.   Reader: VarshneyDataReader

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Varshney_Full1_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Varshney_Full1_Electrical_graph.json" } - ``` - - -### Neurons (herm) (279) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (23) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_Varshney_data_hiveplot.md b/docs/Full1_Varshney_data_hiveplot.md deleted file mode 100644 index 448f1e15d..000000000 --- a/docs/Full1_Varshney_data_hiveplot.md +++ /dev/null @@ -1,356 +0,0 @@ ---- -title: "Dataset: Varshney" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Varshney et al. 2011 -

Data extracted from NeuronConnectFormatted.xlsx for neuronal connectivity.   Reader: VarshneyDataReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Varshney_Full1_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Varshney_Full1_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (279) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (23) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_White_A_data.md b/docs/Full1_White_A_data.md deleted file mode 100644 index 3ca5791ca..000000000 --- a/docs/Full1_White_A_data.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: White_A" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_A.csv - adult (A) N2U series ("The N2U series was from an old hermaphrodite that gave good quality pictures" - White et al. 1986).   Reader: White_A

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/White_A_Full1_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_A_Full1_Electrical.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_White_A_data_graph.md b/docs/Full1_White_A_data_graph.md deleted file mode 100644 index 150cb27c6..000000000 --- a/docs/Full1_White_A_data_graph.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: White_A" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_A.csv - adult (A) N2U series ("The N2U series was from an old hermaphrodite that gave good quality pictures" - White et al. 1986).   Reader: White_A

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/White_A_Full1_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/White_A_Full1_Electrical_graph.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_White_A_data_hiveplot.md b/docs/Full1_White_A_data_hiveplot.md deleted file mode 100644 index 0568f3fc6..000000000 --- a/docs/Full1_White_A_data_hiveplot.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: White_A" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_A.csv - adult (A) N2U series ("The N2U series was from an old hermaphrodite that gave good quality pictures" - White et al. 1986).   Reader: White_A

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/White_A_Full1_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_A_Full1_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_White_L4_data.md b/docs/Full1_White_L4_data.md deleted file mode 100644 index 24d9c45c5..000000000 --- a/docs/Full1_White_L4_data.md +++ /dev/null @@ -1,399 +0,0 @@ ---- -title: "Dataset: White_L4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_L4.csv - JSH series ("The JSH animal was a fourth stage (L4) larva" - White et al. 1986).   Reader: White_L4

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/White_L4_Full1_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_L4_Full1_Electrical.json" } - ``` - - -### Neurons (herm) (178) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (124) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (5) -
Full list of Other cells in this dataset -CEPshVL - | CEPshVR - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_White_L4_data_graph.md b/docs/Full1_White_L4_data_graph.md deleted file mode 100644 index 63990cc54..000000000 --- a/docs/Full1_White_L4_data_graph.md +++ /dev/null @@ -1,397 +0,0 @@ ---- -title: "Dataset: White_L4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_L4.csv - JSH series ("The JSH animal was a fourth stage (L4) larva" - White et al. 1986).   Reader: White_L4

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/White_L4_Full1_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/White_L4_Full1_Electrical_graph.json" } - ``` - - -### Neurons (herm) (178) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (124) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (5) -
Full list of Other cells in this dataset -CEPshVL - | CEPshVR - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_White_L4_data_hiveplot.md b/docs/Full1_White_L4_data_hiveplot.md deleted file mode 100644 index 2aa2a69a9..000000000 --- a/docs/Full1_White_L4_data_hiveplot.md +++ /dev/null @@ -1,399 +0,0 @@ ---- -title: "Dataset: White_L4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_L4.csv - JSH series ("The JSH animal was a fourth stage (L4) larva" - White et al. 1986).   Reader: White_L4

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/White_L4_Full1_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_L4_Full1_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (178) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (124) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (5) -
Full list of Other cells in this dataset -CEPshVL - | CEPshVR - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_White_whole_data.md b/docs/Full1_White_whole_data.md deleted file mode 100644 index 776ea6fc0..000000000 --- a/docs/Full1_White_whole_data.md +++ /dev/null @@ -1,371 +0,0 @@ ---- -title: "Dataset: White_whole" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_whole.csv - all connectivity from White et al. 1986).   Reader: White_whole

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/White_whole_Full1_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_whole_Full1_Electrical.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (3) -
Full list of Muscles in this dataset -BWM - | pm1 - | pm4_UNSPECIFIED - -
- -### Other cells (6) -
Full list of Other cells in this dataset -GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_White_whole_data_graph.md b/docs/Full1_White_whole_data_graph.md deleted file mode 100644 index 74208ca12..000000000 --- a/docs/Full1_White_whole_data_graph.md +++ /dev/null @@ -1,369 +0,0 @@ ---- -title: "Dataset: White_whole" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_whole.csv - all connectivity from White et al. 1986).   Reader: White_whole

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/White_whole_Full1_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/White_whole_Full1_Electrical_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (3) -
Full list of Muscles in this dataset -BWM - | pm1 - | pm4_UNSPECIFIED - -
- -### Other cells (6) -
Full list of Other cells in this dataset -GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_White_whole_data_hiveplot.md b/docs/Full1_White_whole_data_hiveplot.md deleted file mode 100644 index b651f1bbb..000000000 --- a/docs/Full1_White_whole_data_hiveplot.md +++ /dev/null @@ -1,371 +0,0 @@ ---- -title: "Dataset: White_whole" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_whole.csv - all connectivity from White et al. 1986).   Reader: White_whole

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/White_whole_Full1_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_whole_Full1_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (3) -
Full list of Muscles in this dataset -BWM - | pm1 - | pm4_UNSPECIFIED - -
- -### Other cells (6) -
Full list of Other cells in this dataset -GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_Witvliet1_data.md b/docs/Full1_Witvliet1_data.md deleted file mode 100644 index 2899337ff..000000000 --- a/docs/Full1_Witvliet1_data.md +++ /dev/null @@ -1,388 +0,0 @@ ---- -title: "Dataset: Witvliet1" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_1.xlsx - Witvliet dataset 1 (L1 stage).   Reader: WitvlietDataReader1

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet1_Full1_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet1_Full1_Electrical.json" } - ``` - - -### Neurons (herm) (161) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (141) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVL - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (17) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_Witvliet1_data_graph.md b/docs/Full1_Witvliet1_data_graph.md deleted file mode 100644 index 726abace9..000000000 --- a/docs/Full1_Witvliet1_data_graph.md +++ /dev/null @@ -1,386 +0,0 @@ ---- -title: "Dataset: Witvliet1" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_1.xlsx - Witvliet dataset 1 (L1 stage).   Reader: WitvlietDataReader1

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Witvliet1_Full1_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet1_Full1_Electrical_graph.json" } - ``` - - -### Neurons (herm) (161) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (141) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVL - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (17) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_Witvliet1_data_hiveplot.md b/docs/Full1_Witvliet1_data_hiveplot.md deleted file mode 100644 index 9f247c337..000000000 --- a/docs/Full1_Witvliet1_data_hiveplot.md +++ /dev/null @@ -1,388 +0,0 @@ ---- -title: "Dataset: Witvliet1" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_1.xlsx - Witvliet dataset 1 (L1 stage).   Reader: WitvlietDataReader1

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet1_Full1_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet1_Full1_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (161) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (141) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVL - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (17) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_Witvliet2_data.md b/docs/Full1_Witvliet2_data.md deleted file mode 100644 index 3c4ebe43a..000000000 --- a/docs/Full1_Witvliet2_data.md +++ /dev/null @@ -1,394 +0,0 @@ ---- -title: "Dataset: Witvliet2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_2.xlsx - Witvliet dataset 2 (L1 stage).   Reader: WitvlietDataReader2

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet2_Full1_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet2_Full1_Electrical.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (21) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (11) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | exc_gl - -
diff --git a/docs/Full1_Witvliet2_data_graph.md b/docs/Full1_Witvliet2_data_graph.md deleted file mode 100644 index 9a226646b..000000000 --- a/docs/Full1_Witvliet2_data_graph.md +++ /dev/null @@ -1,392 +0,0 @@ ---- -title: "Dataset: Witvliet2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_2.xlsx - Witvliet dataset 2 (L1 stage).   Reader: WitvlietDataReader2

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Witvliet2_Full1_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet2_Full1_Electrical_graph.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (21) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (11) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | exc_gl - -
diff --git a/docs/Full1_Witvliet2_data_hiveplot.md b/docs/Full1_Witvliet2_data_hiveplot.md deleted file mode 100644 index 58da531c2..000000000 --- a/docs/Full1_Witvliet2_data_hiveplot.md +++ /dev/null @@ -1,394 +0,0 @@ ---- -title: "Dataset: Witvliet2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_2.xlsx - Witvliet dataset 2 (L1 stage).   Reader: WitvlietDataReader2

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet2_Full1_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet2_Full1_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (21) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (11) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | exc_gl - -
diff --git a/docs/Full1_Witvliet3_data.md b/docs/Full1_Witvliet3_data.md deleted file mode 100644 index 0a86448a8..000000000 --- a/docs/Full1_Witvliet3_data.md +++ /dev/null @@ -1,398 +0,0 @@ ---- -title: "Dataset: Witvliet3" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_3.xlsx - Witvliet dataset 3 (L1 stage).   Reader: WitvlietDataReader3

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet3_Full1_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet3_Full1_Electrical.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (27) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_Witvliet3_data_graph.md b/docs/Full1_Witvliet3_data_graph.md deleted file mode 100644 index fb70d08ff..000000000 --- a/docs/Full1_Witvliet3_data_graph.md +++ /dev/null @@ -1,396 +0,0 @@ ---- -title: "Dataset: Witvliet3" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_3.xlsx - Witvliet dataset 3 (L1 stage).   Reader: WitvlietDataReader3

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Witvliet3_Full1_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet3_Full1_Electrical_graph.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (27) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_Witvliet3_data_hiveplot.md b/docs/Full1_Witvliet3_data_hiveplot.md deleted file mode 100644 index e8e1166cc..000000000 --- a/docs/Full1_Witvliet3_data_hiveplot.md +++ /dev/null @@ -1,398 +0,0 @@ ---- -title: "Dataset: Witvliet3" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_3.xlsx - Witvliet dataset 3 (L1 stage).   Reader: WitvlietDataReader3

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet3_Full1_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet3_Full1_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (27) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_Witvliet4_data.md b/docs/Full1_Witvliet4_data.md deleted file mode 100644 index 4c4e186c1..000000000 --- a/docs/Full1_Witvliet4_data.md +++ /dev/null @@ -1,398 +0,0 @@ ---- -title: "Dataset: Witvliet4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_4.xlsx - Witvliet dataset 4 (L1 stage).   Reader: WitvlietDataReader4

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet4_Full1_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet4_Full1_Electrical.json" } - ``` - - -### Neurons (herm) (168) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (134) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | SABD - | SABVL - | SABVR - | SDQL - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (26) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (10) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_Witvliet4_data_graph.md b/docs/Full1_Witvliet4_data_graph.md deleted file mode 100644 index 41c6d467b..000000000 --- a/docs/Full1_Witvliet4_data_graph.md +++ /dev/null @@ -1,396 +0,0 @@ ---- -title: "Dataset: Witvliet4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_4.xlsx - Witvliet dataset 4 (L1 stage).   Reader: WitvlietDataReader4

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Witvliet4_Full1_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet4_Full1_Electrical_graph.json" } - ``` - - -### Neurons (herm) (168) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (134) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | SABD - | SABVL - | SABVR - | SDQL - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (26) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (10) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_Witvliet4_data_hiveplot.md b/docs/Full1_Witvliet4_data_hiveplot.md deleted file mode 100644 index 82fa39ad5..000000000 --- a/docs/Full1_Witvliet4_data_hiveplot.md +++ /dev/null @@ -1,398 +0,0 @@ ---- -title: "Dataset: Witvliet4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_4.xlsx - Witvliet dataset 4 (L1 stage).   Reader: WitvlietDataReader4

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet4_Full1_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet4_Full1_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (168) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (134) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | SABD - | SABVL - | SABVR - | SDQL - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (26) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (10) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_Witvliet5_data.md b/docs/Full1_Witvliet5_data.md deleted file mode 100644 index 810139ffc..000000000 --- a/docs/Full1_Witvliet5_data.md +++ /dev/null @@ -1,399 +0,0 @@ ---- -title: "Dataset: Witvliet5" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_5.xlsx - Witvliet dataset 5 (L2 stage).   Reader: WitvlietDataReader5

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet5_Full1_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet5_Full1_Electrical.json" } - ``` - - -### Neurons (herm) (174) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DB1 - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (128) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (28) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_Witvliet5_data_graph.md b/docs/Full1_Witvliet5_data_graph.md deleted file mode 100644 index e9dde69fb..000000000 --- a/docs/Full1_Witvliet5_data_graph.md +++ /dev/null @@ -1,397 +0,0 @@ ---- -title: "Dataset: Witvliet5" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_5.xlsx - Witvliet dataset 5 (L2 stage).   Reader: WitvlietDataReader5

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Witvliet5_Full1_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet5_Full1_Electrical_graph.json" } - ``` - - -### Neurons (herm) (174) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DB1 - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (128) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (28) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_Witvliet5_data_hiveplot.md b/docs/Full1_Witvliet5_data_hiveplot.md deleted file mode 100644 index 888bba9f9..000000000 --- a/docs/Full1_Witvliet5_data_hiveplot.md +++ /dev/null @@ -1,399 +0,0 @@ ---- -title: "Dataset: Witvliet5" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_5.xlsx - Witvliet dataset 5 (L2 stage).   Reader: WitvlietDataReader5

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet5_Full1_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet5_Full1_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (174) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DB1 - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (128) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (28) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_Witvliet6_data.md b/docs/Full1_Witvliet6_data.md deleted file mode 100644 index b6c2a6768..000000000 --- a/docs/Full1_Witvliet6_data.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Witvliet6" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_6.xlsx - Witvliet dataset 6 (L3 stage).   Reader: WitvlietDataReader6

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet6_Full1_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet6_Full1_Electrical.json" } - ``` - - -### Neurons (herm) (175) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (127) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_Witvliet6_data_graph.md b/docs/Full1_Witvliet6_data_graph.md deleted file mode 100644 index 70639d939..000000000 --- a/docs/Full1_Witvliet6_data_graph.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: Witvliet6" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_6.xlsx - Witvliet dataset 6 (L3 stage).   Reader: WitvlietDataReader6

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Witvliet6_Full1_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet6_Full1_Electrical_graph.json" } - ``` - - -### Neurons (herm) (175) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (127) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_Witvliet6_data_hiveplot.md b/docs/Full1_Witvliet6_data_hiveplot.md deleted file mode 100644 index 2ca897ede..000000000 --- a/docs/Full1_Witvliet6_data_hiveplot.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Witvliet6" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_6.xlsx - Witvliet dataset 6 (L3 stage).   Reader: WitvlietDataReader6

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet6_Full1_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet6_Full1_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (175) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (127) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Full1_Witvliet7_data.md b/docs/Full1_Witvliet7_data.md deleted file mode 100644 index 100eceb33..000000000 --- a/docs/Full1_Witvliet7_data.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Witvliet7" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_7.xlsx - Witvliet dataset 7 (adult stage).   Reader: WitvlietDataReader7

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet7_Full1_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet7_Full1_Electrical.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVR - -
diff --git a/docs/Full1_Witvliet7_data_graph.md b/docs/Full1_Witvliet7_data_graph.md deleted file mode 100644 index 9b9629ac8..000000000 --- a/docs/Full1_Witvliet7_data_graph.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: Witvliet7" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_7.xlsx - Witvliet dataset 7 (adult stage).   Reader: WitvlietDataReader7

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Witvliet7_Full1_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet7_Full1_Electrical_graph.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVR - -
diff --git a/docs/Full1_Witvliet7_data_hiveplot.md b/docs/Full1_Witvliet7_data_hiveplot.md deleted file mode 100644 index ba70cc6e5..000000000 --- a/docs/Full1_Witvliet7_data_hiveplot.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Witvliet7" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_7.xlsx - Witvliet dataset 7 (adult stage).   Reader: WitvlietDataReader7

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet7_Full1_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet7_Full1_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVR - -
diff --git a/docs/Full1_Witvliet8_data.md b/docs/Full1_Witvliet8_data.md deleted file mode 100644 index 236e57ccb..000000000 --- a/docs/Full1_Witvliet8_data.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: Witvliet8" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_8.xlsx - Witvliet dataset 8 (adult stage).   Reader: WitvlietDataReader8

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet8_Full1_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet8_Full1_Electrical.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (7) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRR - | GLRVL - -
diff --git a/docs/Full1_Witvliet8_data_graph.md b/docs/Full1_Witvliet8_data_graph.md deleted file mode 100644 index cb7df287e..000000000 --- a/docs/Full1_Witvliet8_data_graph.md +++ /dev/null @@ -1,399 +0,0 @@ ---- -title: "Dataset: Witvliet8" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_8.xlsx - Witvliet dataset 8 (adult stage).   Reader: WitvlietDataReader8

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Witvliet8_Full1_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet8_Full1_Electrical_graph.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (7) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRR - | GLRVL - -
diff --git a/docs/Full1_Witvliet8_data_hiveplot.md b/docs/Full1_Witvliet8_data_hiveplot.md deleted file mode 100644 index 85994100e..000000000 --- a/docs/Full1_Witvliet8_data_hiveplot.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: Witvliet8" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_8.xlsx - Witvliet dataset 8 (adult stage).   Reader: WitvlietDataReader8

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet8_Full1_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet8_Full1_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (7) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRR - | GLRVL - -
diff --git a/docs/Full1_WormNeuroAtlas_data.md b/docs/Full1_WormNeuroAtlas_data.md deleted file mode 100644 index 9f27b8707..000000000 --- a/docs/Full1_WormNeuroAtlas_data.md +++ /dev/null @@ -1,356 +0,0 @@ ---- -title: "Dataset: WormNeuroAtlas" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)** for neuronal connectivity.   Reader: WormNeuroAtlasReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Full1_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Full1_Electrical.json" } - ``` - - -### Neurons (herm) (298) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (4) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AWCL - | AWCR - | CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_WormNeuroAtlas_data_graph.md b/docs/Full1_WormNeuroAtlas_data_graph.md deleted file mode 100644 index 117c07a28..000000000 --- a/docs/Full1_WormNeuroAtlas_data_graph.md +++ /dev/null @@ -1,354 +0,0 @@ ---- -title: "Dataset: WormNeuroAtlas" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)** for neuronal connectivity.   Reader: WormNeuroAtlasReader

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/WormNeuroAtlas_Full1_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/WormNeuroAtlas_Full1_Electrical_graph.json" } - ``` - - -### Neurons (herm) (298) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (4) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AWCL - | AWCR - | CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Full1_WormNeuroAtlas_data_hiveplot.md b/docs/Full1_WormNeuroAtlas_data_hiveplot.md deleted file mode 100644 index 9781e029b..000000000 --- a/docs/Full1_WormNeuroAtlas_data_hiveplot.md +++ /dev/null @@ -1,356 +0,0 @@ ---- -title: "Dataset: WormNeuroAtlas" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data Neurons Pharynx Social Network Escape Response Circuit Cook 2019 Fig 3 - - A view of the data set with neurons grouped as in Figure 3 of Cook et al. 2019 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)** for neuronal connectivity.   Reader: WormNeuroAtlasReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Full1_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Full1_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (298) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (4) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AWCL - | AWCR - | CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_Bentley2016_MA_data.md b/docs/Neurons_Bentley2016_MA_data.md deleted file mode 100644 index ab198148c..000000000 --- a/docs/Neurons_Bentley2016_MA_data.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Bentley2016_MA" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on monoaminergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasMAReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/Bentley2016_MA_Neurons_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (233) -
Full list of Neurons (hermaphrodite only) in this dataset -ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AIYL - | AIYR - | AIZL - | AIZR - | ALML - | ALMR - | ALNL - | ALNR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASKL - | ASKR - | AUAL - | AUAR - | AVBL - | AVBR - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVL - | AVM - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVQL - | PVQR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIML - | RIMR - | RIS - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (69) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | AINL - | AINR - | ALA - | AQR - | ASJL - | ASJR - | AVAL - | AVAR - | AVDL - | AVDR - | AVEL - | AVER - | AVG - | AVKL - | AVKR - | AWAL - | AWAR - | AWCL - | AWCR - | CANL - | CANR - | DVB - | I5 - | MI - | PDB - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVR - | PVWL - | PVWR - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIPL - | RIPR - | RIR - | RIVL - | RIVR - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_Bentley2016_MA_data_graph.md b/docs/Neurons_Bentley2016_MA_data_graph.md deleted file mode 100644 index a07dae810..000000000 --- a/docs/Neurons_Bentley2016_MA_data_graph.md +++ /dev/null @@ -1,348 +0,0 @@ ---- -title: "Dataset: Bentley2016_MA" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on monoaminergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasMAReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/Bentley2016_MA_Neurons_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (233) -
Full list of Neurons (hermaphrodite only) in this dataset -ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AIYL - | AIYR - | AIZL - | AIZR - | ALML - | ALMR - | ALNL - | ALNR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASKL - | ASKR - | AUAL - | AUAR - | AVBL - | AVBR - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVL - | AVM - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVQL - | PVQR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIML - | RIMR - | RIS - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (69) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | AINL - | AINR - | ALA - | AQR - | ASJL - | ASJR - | AVAL - | AVAR - | AVDL - | AVDR - | AVEL - | AVER - | AVG - | AVKL - | AVKR - | AWAL - | AWAR - | AWCL - | AWCR - | CANL - | CANR - | DVB - | I5 - | MI - | PDB - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVR - | PVWL - | PVWR - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIPL - | RIPR - | RIR - | RIVL - | RIVR - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_Bentley2016_MA_data_hiveplot.md b/docs/Neurons_Bentley2016_MA_data_hiveplot.md deleted file mode 100644 index 776ff680b..000000000 --- a/docs/Neurons_Bentley2016_MA_data_hiveplot.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Bentley2016_MA" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on monoaminergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasMAReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/Bentley2016_MA_Neurons_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (233) -
Full list of Neurons (hermaphrodite only) in this dataset -ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AIYL - | AIYR - | AIZL - | AIZR - | ALML - | ALMR - | ALNL - | ALNR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASKL - | ASKR - | AUAL - | AUAR - | AVBL - | AVBR - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVL - | AVM - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVQL - | PVQR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIML - | RIMR - | RIS - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (69) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | AINL - | AINR - | ALA - | AQR - | ASJL - | ASJR - | AVAL - | AVAR - | AVDL - | AVDR - | AVEL - | AVER - | AVG - | AVKL - | AVKR - | AWAL - | AWAR - | AWCL - | AWCR - | CANL - | CANR - | DVB - | I5 - | MI - | PDB - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVR - | PVWL - | PVWR - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIPL - | RIPR - | RIR - | RIVL - | RIVR - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_Bentley2016_PEP_data.md b/docs/Neurons_Bentley2016_PEP_data.md deleted file mode 100644 index cd2d9ad87..000000000 --- a/docs/Neurons_Bentley2016_PEP_data.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Bentley2016_PEP" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on peptidergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasPepReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/Bentley2016_PEP_Neurons_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_Bentley2016_PEP_data_graph.md b/docs/Neurons_Bentley2016_PEP_data_graph.md deleted file mode 100644 index db9a2a054..000000000 --- a/docs/Neurons_Bentley2016_PEP_data_graph.md +++ /dev/null @@ -1,348 +0,0 @@ ---- -title: "Dataset: Bentley2016_PEP" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on peptidergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasPepReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/Bentley2016_PEP_Neurons_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_Bentley2016_PEP_data_hiveplot.md b/docs/Neurons_Bentley2016_PEP_data_hiveplot.md deleted file mode 100644 index cf48e6d12..000000000 --- a/docs/Neurons_Bentley2016_PEP_data_hiveplot.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Bentley2016_PEP" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on peptidergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasPepReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/Bentley2016_PEP_Neurons_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_Cook2019Herm_data.md b/docs/Neurons_Cook2019Herm_data.md deleted file mode 100644 index 016959f2c..000000000 --- a/docs/Neurons_Cook2019Herm_data.md +++ /dev/null @@ -1,530 +0,0 @@ ---- -title: "Dataset: Cook2019Herm" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of hermaphrodite.   Reader: Cook2019HermReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Cook2019Herm_Neurons_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2019Herm_Neurons_Electrical.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (135) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | um1AL - | um1AR - | um1PL - | um1PR - | um2AL - | um2AR - | um2PL - | um2PR - | vm1AL - | vm1AR - | vm1PL - | vm1PR - | vm2AL - | vm2AR - | vm2PL - | vm2PR - -
- -### Other cells (36) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | hmc - | hyp - | int - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Neurons_Cook2019Herm_data_graph.md b/docs/Neurons_Cook2019Herm_data_graph.md deleted file mode 100644 index 0a59c3de0..000000000 --- a/docs/Neurons_Cook2019Herm_data_graph.md +++ /dev/null @@ -1,528 +0,0 @@ ---- -title: "Dataset: Cook2019Herm" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of hermaphrodite.   Reader: Cook2019HermReader

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Cook2019Herm_Neurons_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Cook2019Herm_Neurons_Electrical_graph.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (135) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | um1AL - | um1AR - | um1PL - | um1PR - | um2AL - | um2AR - | um2PL - | um2PR - | vm1AL - | vm1AR - | vm1PL - | vm1PR - | vm2AL - | vm2AR - | vm2PL - | vm2PR - -
- -### Other cells (36) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | hmc - | hyp - | int - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Neurons_Cook2019Herm_data_hiveplot.md b/docs/Neurons_Cook2019Herm_data_hiveplot.md deleted file mode 100644 index d195aa124..000000000 --- a/docs/Neurons_Cook2019Herm_data_hiveplot.md +++ /dev/null @@ -1,530 +0,0 @@ ---- -title: "Dataset: Cook2019Herm" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of hermaphrodite.   Reader: Cook2019HermReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Cook2019Herm_Neurons_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2019Herm_Neurons_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (135) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | um1AL - | um1AR - | um1PL - | um1PR - | um2AL - | um2AR - | um2PL - | um2PR - | vm1AL - | vm1AR - | vm1PL - | vm1PR - | vm2AL - | vm2AR - | vm2PL - | vm2PR - -
- -### Other cells (36) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | hmc - | hyp - | int - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Neurons_Cook2019Male_data.md b/docs/Neurons_Cook2019Male_data.md deleted file mode 100644 index dccd7a9cb..000000000 --- a/docs/Neurons_Cook2019Male_data.md +++ /dev/null @@ -1,653 +0,0 @@ ---- -title: "Dataset: Cook2019Male" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of male.   Reader: Cook2019MaleReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Cook2019Male_Neurons_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2019Male_Neurons_Electrical.json" } - ``` - - -### Neurons (herm) (292) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (10) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAR - | BAGR - | HSNL - | HSNR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (156) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | ailL - | ailR - | aobL - | aobR - | cdlL - | cdlR - | dglL1 - | dglL2 - | dglL3 - | dglL4 - | dglL5 - | dglL6 - | dglL7 - | dglR1 - | dglR2 - | dglR3 - | dglR4 - | dglR5 - | dglR6 - | dglR7 - | dglR8 - | dspL - | dspR - | dsrL - | dsrR - | gecL - | gecR - | grtL - | grtR - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | pobL - | pobR - | polL - | polR - | vspL - | vspR - | vsrL - | vsrR - -
- -### Other cells (135) -
Full list of Other cells in this dataset -CA02 - | CA03 - | CA04 - | CA05 - | CA06 - | CA07 - | CA08 - | CA09 - | CEMDL - | CEMDR - | CEMVL - | CEMVR - | CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | CP01 - | CP02 - | CP03 - | CP04 - | CP05 - | CP06 - | CP07 - | CP08 - | CP09 - | DVE - | DVF - | DX1 - | DX2 - | DX3 - | EF1 - | EF2 - | EF3 - | GLRDR - | GLRVL - | GLRVR - | HOA - | HOB - | MCML - | MCMR - | PCAL - | PCAR - | PCBL - | PCBR - | PCCL - | PCCR - | PDC - | PGA - | PHDL - | PHDR - | PVV - | PVX - | PVY - | PVZ - | R1AL - | R1AR - | R1BL - | R1BR - | R1shL - | R1shR - | R2AL - | R2AR - | R2BL - | R2BR - | R2shL - | R2shR - | R3AL - | R3AR - | R3BL - | R3BR - | R3shL - | R3shR - | R4AL - | R4AR - | R4BL - | R4BR - | R4shL - | R5AL - | R5AR - | R5BL - | R5BR - | R5shL - | R5shR - | R6AL - | R6AR - | R6BL - | R6BR - | R7AL - | R7AR - | R7BL - | R7BR - | R7shL - | R7shR - | R8AL - | R8AR - | R8BL - | R8BR - | R9AL - | R9AR - | R9BL - | R9BR - | R9shL - | SPCL - | SPCR - | SPDL - | SPDR - | SPVL - | SPVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | gonad - | hmc - | hyp - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - | proctodeum - -
diff --git a/docs/Neurons_Cook2019Male_data_graph.md b/docs/Neurons_Cook2019Male_data_graph.md deleted file mode 100644 index 2ae1266d1..000000000 --- a/docs/Neurons_Cook2019Male_data_graph.md +++ /dev/null @@ -1,651 +0,0 @@ ---- -title: "Dataset: Cook2019Male" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of male.   Reader: Cook2019MaleReader

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Cook2019Male_Neurons_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Cook2019Male_Neurons_Electrical_graph.json" } - ``` - - -### Neurons (herm) (292) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (10) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAR - | BAGR - | HSNL - | HSNR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (156) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | ailL - | ailR - | aobL - | aobR - | cdlL - | cdlR - | dglL1 - | dglL2 - | dglL3 - | dglL4 - | dglL5 - | dglL6 - | dglL7 - | dglR1 - | dglR2 - | dglR3 - | dglR4 - | dglR5 - | dglR6 - | dglR7 - | dglR8 - | dspL - | dspR - | dsrL - | dsrR - | gecL - | gecR - | grtL - | grtR - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | pobL - | pobR - | polL - | polR - | vspL - | vspR - | vsrL - | vsrR - -
- -### Other cells (135) -
Full list of Other cells in this dataset -CA02 - | CA03 - | CA04 - | CA05 - | CA06 - | CA07 - | CA08 - | CA09 - | CEMDL - | CEMDR - | CEMVL - | CEMVR - | CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | CP01 - | CP02 - | CP03 - | CP04 - | CP05 - | CP06 - | CP07 - | CP08 - | CP09 - | DVE - | DVF - | DX1 - | DX2 - | DX3 - | EF1 - | EF2 - | EF3 - | GLRDR - | GLRVL - | GLRVR - | HOA - | HOB - | MCML - | MCMR - | PCAL - | PCAR - | PCBL - | PCBR - | PCCL - | PCCR - | PDC - | PGA - | PHDL - | PHDR - | PVV - | PVX - | PVY - | PVZ - | R1AL - | R1AR - | R1BL - | R1BR - | R1shL - | R1shR - | R2AL - | R2AR - | R2BL - | R2BR - | R2shL - | R2shR - | R3AL - | R3AR - | R3BL - | R3BR - | R3shL - | R3shR - | R4AL - | R4AR - | R4BL - | R4BR - | R4shL - | R5AL - | R5AR - | R5BL - | R5BR - | R5shL - | R5shR - | R6AL - | R6AR - | R6BL - | R6BR - | R7AL - | R7AR - | R7BL - | R7BR - | R7shL - | R7shR - | R8AL - | R8AR - | R8BL - | R8BR - | R9AL - | R9AR - | R9BL - | R9BR - | R9shL - | SPCL - | SPCR - | SPDL - | SPDR - | SPVL - | SPVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | gonad - | hmc - | hyp - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - | proctodeum - -
diff --git a/docs/Neurons_Cook2019Male_data_hiveplot.md b/docs/Neurons_Cook2019Male_data_hiveplot.md deleted file mode 100644 index f6039a59a..000000000 --- a/docs/Neurons_Cook2019Male_data_hiveplot.md +++ /dev/null @@ -1,653 +0,0 @@ ---- -title: "Dataset: Cook2019Male" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of male.   Reader: Cook2019MaleReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Cook2019Male_Neurons_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2019Male_Neurons_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (292) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (10) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAR - | BAGR - | HSNL - | HSNR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (156) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | ailL - | ailR - | aobL - | aobR - | cdlL - | cdlR - | dglL1 - | dglL2 - | dglL3 - | dglL4 - | dglL5 - | dglL6 - | dglL7 - | dglR1 - | dglR2 - | dglR3 - | dglR4 - | dglR5 - | dglR6 - | dglR7 - | dglR8 - | dspL - | dspR - | dsrL - | dsrR - | gecL - | gecR - | grtL - | grtR - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | pobL - | pobR - | polL - | polR - | vspL - | vspR - | vsrL - | vsrR - -
- -### Other cells (135) -
Full list of Other cells in this dataset -CA02 - | CA03 - | CA04 - | CA05 - | CA06 - | CA07 - | CA08 - | CA09 - | CEMDL - | CEMDR - | CEMVL - | CEMVR - | CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | CP01 - | CP02 - | CP03 - | CP04 - | CP05 - | CP06 - | CP07 - | CP08 - | CP09 - | DVE - | DVF - | DX1 - | DX2 - | DX3 - | EF1 - | EF2 - | EF3 - | GLRDR - | GLRVL - | GLRVR - | HOA - | HOB - | MCML - | MCMR - | PCAL - | PCAR - | PCBL - | PCBR - | PCCL - | PCCR - | PDC - | PGA - | PHDL - | PHDR - | PVV - | PVX - | PVY - | PVZ - | R1AL - | R1AR - | R1BL - | R1BR - | R1shL - | R1shR - | R2AL - | R2AR - | R2BL - | R2BR - | R2shL - | R2shR - | R3AL - | R3AR - | R3BL - | R3BR - | R3shL - | R3shR - | R4AL - | R4AR - | R4BL - | R4BR - | R4shL - | R5AL - | R5AR - | R5BL - | R5BR - | R5shL - | R5shR - | R6AL - | R6AR - | R6BL - | R6BR - | R7AL - | R7AR - | R7BL - | R7BR - | R7shL - | R7shR - | R8AL - | R8AR - | R8BL - | R8BR - | R9AL - | R9AR - | R9BL - | R9BR - | R9shL - | SPCL - | SPCR - | SPDL - | SPDR - | SPVL - | SPVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | gonad - | hmc - | hyp - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - | proctodeum - -
diff --git a/docs/Neurons_Cook2020_data.md b/docs/Neurons_Cook2020_data.md deleted file mode 100644 index 92f265fc3..000000000 --- a/docs/Neurons_Cook2020_data.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Cook2020" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2020 -

Data extracted from cne24932-sup-0004-supinfo4.csv and cne24932-sup-0005-supinfo5.csv for connectivity of pharyngeal neurons, muscles and other cells.   Reader: Cook2020DataReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Cook2020_Neurons_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2020_Neurons_Electrical.json" } - ``` - - -### Neurons (herm) (22) -
Full list of Neurons (hermaphrodite only) in this dataset -I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | RIPL - | RIPR - -
- -### Missing neurons (280) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (20) -
Full list of Muscles in this dataset -pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - -
- -### Other cells (21) -
Full list of Other cells in this dataset -bm - | e2DL - | e2DR - | e2V - | e3D - | e3VL - | e3VR - | g1AL - | g1AR - | g1P - | g2L - | g2R - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Neurons_Cook2020_data_graph.md b/docs/Neurons_Cook2020_data_graph.md deleted file mode 100644 index af3c2a3cf..000000000 --- a/docs/Neurons_Cook2020_data_graph.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: Cook2020" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2020 -

Data extracted from cne24932-sup-0004-supinfo4.csv and cne24932-sup-0005-supinfo5.csv for connectivity of pharyngeal neurons, muscles and other cells.   Reader: Cook2020DataReader

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Cook2020_Neurons_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Cook2020_Neurons_Electrical_graph.json" } - ``` - - -### Neurons (herm) (22) -
Full list of Neurons (hermaphrodite only) in this dataset -I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | RIPL - | RIPR - -
- -### Missing neurons (280) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (20) -
Full list of Muscles in this dataset -pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - -
- -### Other cells (21) -
Full list of Other cells in this dataset -bm - | e2DL - | e2DR - | e2V - | e3D - | e3VL - | e3VR - | g1AL - | g1AR - | g1P - | g2L - | g2R - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Neurons_Cook2020_data_hiveplot.md b/docs/Neurons_Cook2020_data_hiveplot.md deleted file mode 100644 index 09b1a0430..000000000 --- a/docs/Neurons_Cook2020_data_hiveplot.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Cook2020" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2020 -

Data extracted from cne24932-sup-0004-supinfo4.csv and cne24932-sup-0005-supinfo5.csv for connectivity of pharyngeal neurons, muscles and other cells.   Reader: Cook2020DataReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Cook2020_Neurons_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2020_Neurons_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (22) -
Full list of Neurons (hermaphrodite only) in this dataset -I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | RIPL - | RIPR - -
- -### Missing neurons (280) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (20) -
Full list of Muscles in this dataset -pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - -
- -### Other cells (21) -
Full list of Other cells in this dataset -bm - | e2DL - | e2DR - | e2V - | e3D - | e3VL - | e3VR - | g1AL - | g1AR - | g1P - | g2L - | g2R - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Neurons_Randi2023_data.md b/docs/Neurons_Randi2023_data.md deleted file mode 100644 index 8b93d36e9..000000000 --- a/docs/Neurons_Randi2023_data.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Randi2023" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data on functional connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasFuncReader

- -=== "Functional" - -
- ```plotly - { "file_path": "./assets/Randi2023_Neurons_Functional.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | AQR - | AS1 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DB1 - | DB2 - | DD1 - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SIADL - | SIAVL - | SIAVR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VB1 - | VB2 - | VD1 - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AIAL - | AIAR - | ALML - | ALMR - | ALNL - | ALNR - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVM - | BDUL - | BDUR - | CANL - | CANR - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | HSNL - | HSNR - | I5 - | LUAL - | LUAR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RMHR - | SDQL - | SDQR - | SIADR - | SIBDL - | SIBDR - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB10 - | VB11 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_Randi2023_data_graph.md b/docs/Neurons_Randi2023_data_graph.md deleted file mode 100644 index df9c930d6..000000000 --- a/docs/Neurons_Randi2023_data_graph.md +++ /dev/null @@ -1,348 +0,0 @@ ---- -title: "Dataset: Randi2023" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data on functional connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasFuncReader

- -=== "Functional" - - ```plotly - { "file_path": "./assets/Randi2023_Neurons_Functional_graph.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | AQR - | AS1 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DB1 - | DB2 - | DD1 - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SIADL - | SIAVL - | SIAVR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VB1 - | VB2 - | VD1 - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AIAL - | AIAR - | ALML - | ALMR - | ALNL - | ALNR - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVM - | BDUL - | BDUR - | CANL - | CANR - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | HSNL - | HSNR - | I5 - | LUAL - | LUAR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RMHR - | SDQL - | SDQR - | SIADR - | SIBDL - | SIBDR - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB10 - | VB11 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_Randi2023_data_hiveplot.md b/docs/Neurons_Randi2023_data_hiveplot.md deleted file mode 100644 index a790e4d48..000000000 --- a/docs/Neurons_Randi2023_data_hiveplot.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Randi2023" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data on functional connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasFuncReader

- -=== "Functional" - -
- ```plotly - { "file_path": "./assets/Randi2023_Neurons_Functional_hiveplot.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | AQR - | AS1 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DB1 - | DB2 - | DD1 - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SIADL - | SIAVL - | SIAVR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VB1 - | VB2 - | VD1 - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AIAL - | AIAR - | ALML - | ALMR - | ALNL - | ALNR - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVM - | BDUL - | BDUR - | CANL - | CANR - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | HSNL - | HSNR - | I5 - | LUAL - | LUAR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RMHR - | SDQL - | SDQR - | SIADR - | SIBDL - | SIBDR - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB10 - | VB11 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_RipollSanchezLongRange_data.md b/docs/Neurons_RipollSanchezLongRange_data.md deleted file mode 100644 index 0d7373d19..000000000 --- a/docs/Neurons_RipollSanchezLongRange_data.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezLongRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_long_range_model.csv for long range model of neuropedtidergic connectome.   Reader: RipollSanchezLongRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezLongRange_Neurons_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_RipollSanchezLongRange_data_graph.md b/docs/Neurons_RipollSanchezLongRange_data_graph.md deleted file mode 100644 index e45153564..000000000 --- a/docs/Neurons_RipollSanchezLongRange_data_graph.md +++ /dev/null @@ -1,345 +0,0 @@ ---- -title: "Dataset: RipollSanchezLongRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_long_range_model.csv for long range model of neuropedtidergic connectome.   Reader: RipollSanchezLongRangeReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/RipollSanchezLongRange_Neurons_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_RipollSanchezLongRange_data_hiveplot.md b/docs/Neurons_RipollSanchezLongRange_data_hiveplot.md deleted file mode 100644 index 3916d39a2..000000000 --- a/docs/Neurons_RipollSanchezLongRange_data_hiveplot.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezLongRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_long_range_model.csv for long range model of neuropedtidergic connectome.   Reader: RipollSanchezLongRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezLongRange_Neurons_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_RipollSanchezMidRange_data.md b/docs/Neurons_RipollSanchezMidRange_data.md deleted file mode 100644 index c6b55aacd..000000000 --- a/docs/Neurons_RipollSanchezMidRange_data.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezMidRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_mid_range_model.csv for mid range model of neuropedtidergic connectome.   Reader: RipollSanchezMidRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezMidRange_Neurons_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_RipollSanchezMidRange_data_graph.md b/docs/Neurons_RipollSanchezMidRange_data_graph.md deleted file mode 100644 index 6101fc0be..000000000 --- a/docs/Neurons_RipollSanchezMidRange_data_graph.md +++ /dev/null @@ -1,345 +0,0 @@ ---- -title: "Dataset: RipollSanchezMidRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_mid_range_model.csv for mid range model of neuropedtidergic connectome.   Reader: RipollSanchezMidRangeReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/RipollSanchezMidRange_Neurons_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_RipollSanchezMidRange_data_hiveplot.md b/docs/Neurons_RipollSanchezMidRange_data_hiveplot.md deleted file mode 100644 index 16369e76e..000000000 --- a/docs/Neurons_RipollSanchezMidRange_data_hiveplot.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezMidRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_mid_range_model.csv for mid range model of neuropedtidergic connectome.   Reader: RipollSanchezMidRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezMidRange_Neurons_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_RipollSanchezShortRange_data.md b/docs/Neurons_RipollSanchezShortRange_data.md deleted file mode 100644 index 530e70266..000000000 --- a/docs/Neurons_RipollSanchezShortRange_data.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezShortRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_short_range_model.csv for short range model of neuropedtidergic connectome.   Reader: RipollSanchezShortRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezShortRange_Neurons_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_RipollSanchezShortRange_data_graph.md b/docs/Neurons_RipollSanchezShortRange_data_graph.md deleted file mode 100644 index 3136c889c..000000000 --- a/docs/Neurons_RipollSanchezShortRange_data_graph.md +++ /dev/null @@ -1,345 +0,0 @@ ---- -title: "Dataset: RipollSanchezShortRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_short_range_model.csv for short range model of neuropedtidergic connectome.   Reader: RipollSanchezShortRangeReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/RipollSanchezShortRange_Neurons_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_RipollSanchezShortRange_data_hiveplot.md b/docs/Neurons_RipollSanchezShortRange_data_hiveplot.md deleted file mode 100644 index 36d66fcfe..000000000 --- a/docs/Neurons_RipollSanchezShortRange_data_hiveplot.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezShortRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_short_range_model.csv for short range model of neuropedtidergic connectome.   Reader: RipollSanchezShortRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezShortRange_Neurons_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_SSData_data.md b/docs/Neurons_SSData_data.md deleted file mode 100644 index ff8931025..000000000 --- a/docs/Neurons_SSData_data.md +++ /dev/null @@ -1,463 +0,0 @@ ---- -title: "Dataset: SSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from CElegansNeuronTables.xls for neuronal connectivity. Note: legacy dataset (based on White_whole) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: SpreadsheetDataReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/SSData_Neurons_Chemical_Exc.json" } - ``` - -=== "Chemical Inh" - -
- ```plotly - { "file_path": "./assets/SSData_Neurons_Chemical_Inh.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/SSData_Neurons_Electrical.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (97) -
Full list of Muscles in this dataset -MANAL - | MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | MVULVA - -
- -### Other cells (0) diff --git a/docs/Neurons_SSData_data_graph.md b/docs/Neurons_SSData_data_graph.md deleted file mode 100644 index 1a7248591..000000000 --- a/docs/Neurons_SSData_data_graph.md +++ /dev/null @@ -1,460 +0,0 @@ ---- -title: "Dataset: SSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from CElegansNeuronTables.xls for neuronal connectivity. Note: legacy dataset (based on White_whole) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: SpreadsheetDataReader

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/SSData_Neurons_Chemical_Exc_graph.json" } - ``` - -=== "Chemical Inh" - - ```plotly - { "file_path": "./assets/SSData_Neurons_Chemical_Inh_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/SSData_Neurons_Electrical_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (97) -
Full list of Muscles in this dataset -MANAL - | MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | MVULVA - -
- -### Other cells (0) diff --git a/docs/Neurons_SSData_data_hiveplot.md b/docs/Neurons_SSData_data_hiveplot.md deleted file mode 100644 index 0d0ee633f..000000000 --- a/docs/Neurons_SSData_data_hiveplot.md +++ /dev/null @@ -1,463 +0,0 @@ ---- -title: "Dataset: SSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from CElegansNeuronTables.xls for neuronal connectivity. Note: legacy dataset (based on White_whole) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: SpreadsheetDataReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/SSData_Neurons_Chemical_Exc_hiveplot.json" } - ``` - -=== "Chemical Inh" - -
- ```plotly - { "file_path": "./assets/SSData_Neurons_Chemical_Inh_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/SSData_Neurons_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (97) -
Full list of Muscles in this dataset -MANAL - | MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | MVULVA - -
- -### Other cells (0) diff --git a/docs/Neurons_UpdSSData2_data.md b/docs/Neurons_UpdSSData2_data.md deleted file mode 100644 index 06ef45907..000000000 --- a/docs/Neurons_UpdSSData2_data.md +++ /dev/null @@ -1,461 +0,0 @@ ---- -title: "Dataset: UpdSSData2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist_MODIFIED.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader2

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Neurons_Chemical_Exc.json" } - ``` - -=== "Chemical Inh" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Neurons_Chemical_Inh.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Neurons_Electrical.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Neurons_UpdSSData2_data_graph.md b/docs/Neurons_UpdSSData2_data_graph.md deleted file mode 100644 index 97c7beb9d..000000000 --- a/docs/Neurons_UpdSSData2_data_graph.md +++ /dev/null @@ -1,458 +0,0 @@ ---- -title: "Dataset: UpdSSData2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist_MODIFIED.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader2

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/UpdSSData2_Neurons_Chemical_Exc_graph.json" } - ``` - -=== "Chemical Inh" - - ```plotly - { "file_path": "./assets/UpdSSData2_Neurons_Chemical_Inh_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/UpdSSData2_Neurons_Electrical_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Neurons_UpdSSData2_data_hiveplot.md b/docs/Neurons_UpdSSData2_data_hiveplot.md deleted file mode 100644 index 4458ace4c..000000000 --- a/docs/Neurons_UpdSSData2_data_hiveplot.md +++ /dev/null @@ -1,461 +0,0 @@ ---- -title: "Dataset: UpdSSData2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist_MODIFIED.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader2

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Neurons_Chemical_Exc_hiveplot.json" } - ``` - -=== "Chemical Inh" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Neurons_Chemical_Inh_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Neurons_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Neurons_UpdSSData_data.md b/docs/Neurons_UpdSSData_data.md deleted file mode 100644 index cf3946d89..000000000 --- a/docs/Neurons_UpdSSData_data.md +++ /dev/null @@ -1,461 +0,0 @@ ---- -title: "Dataset: UpdSSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Neurons_Chemical_Exc.json" } - ``` - -=== "Chemical Inh" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Neurons_Chemical_Inh.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Neurons_Electrical.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Neurons_UpdSSData_data_graph.md b/docs/Neurons_UpdSSData_data_graph.md deleted file mode 100644 index a7f406b3a..000000000 --- a/docs/Neurons_UpdSSData_data_graph.md +++ /dev/null @@ -1,458 +0,0 @@ ---- -title: "Dataset: UpdSSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/UpdSSData_Neurons_Chemical_Exc_graph.json" } - ``` - -=== "Chemical Inh" - - ```plotly - { "file_path": "./assets/UpdSSData_Neurons_Chemical_Inh_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/UpdSSData_Neurons_Electrical_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Neurons_UpdSSData_data_hiveplot.md b/docs/Neurons_UpdSSData_data_hiveplot.md deleted file mode 100644 index c563b548e..000000000 --- a/docs/Neurons_UpdSSData_data_hiveplot.md +++ /dev/null @@ -1,461 +0,0 @@ ---- -title: "Dataset: UpdSSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Neurons_Chemical_Exc_hiveplot.json" } - ``` - -=== "Chemical Inh" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Neurons_Chemical_Inh_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Neurons_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Neurons_Varshney_data.md b/docs/Neurons_Varshney_data.md deleted file mode 100644 index b66fe37a5..000000000 --- a/docs/Neurons_Varshney_data.md +++ /dev/null @@ -1,356 +0,0 @@ ---- -title: "Dataset: Varshney" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Varshney et al. 2011 -

Data extracted from NeuronConnectFormatted.xlsx for neuronal connectivity.   Reader: VarshneyDataReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Varshney_Neurons_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Varshney_Neurons_Electrical.json" } - ``` - - -### Neurons (herm) (279) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (23) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_Varshney_data_graph.md b/docs/Neurons_Varshney_data_graph.md deleted file mode 100644 index 564bad6ca..000000000 --- a/docs/Neurons_Varshney_data_graph.md +++ /dev/null @@ -1,354 +0,0 @@ ---- -title: "Dataset: Varshney" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Varshney et al. 2011 -

Data extracted from NeuronConnectFormatted.xlsx for neuronal connectivity.   Reader: VarshneyDataReader

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Varshney_Neurons_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Varshney_Neurons_Electrical_graph.json" } - ``` - - -### Neurons (herm) (279) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (23) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_Varshney_data_hiveplot.md b/docs/Neurons_Varshney_data_hiveplot.md deleted file mode 100644 index 682142e96..000000000 --- a/docs/Neurons_Varshney_data_hiveplot.md +++ /dev/null @@ -1,356 +0,0 @@ ---- -title: "Dataset: Varshney" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Varshney et al. 2011 -

Data extracted from NeuronConnectFormatted.xlsx for neuronal connectivity.   Reader: VarshneyDataReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Varshney_Neurons_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Varshney_Neurons_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (279) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (23) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_White_A_data.md b/docs/Neurons_White_A_data.md deleted file mode 100644 index e782e32ca..000000000 --- a/docs/Neurons_White_A_data.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: White_A" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_A.csv - adult (A) N2U series ("The N2U series was from an old hermaphrodite that gave good quality pictures" - White et al. 1986).   Reader: White_A

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/White_A_Neurons_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_A_Neurons_Electrical.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_White_A_data_graph.md b/docs/Neurons_White_A_data_graph.md deleted file mode 100644 index ae78dc6a6..000000000 --- a/docs/Neurons_White_A_data_graph.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: White_A" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_A.csv - adult (A) N2U series ("The N2U series was from an old hermaphrodite that gave good quality pictures" - White et al. 1986).   Reader: White_A

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/White_A_Neurons_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/White_A_Neurons_Electrical_graph.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_White_A_data_hiveplot.md b/docs/Neurons_White_A_data_hiveplot.md deleted file mode 100644 index 33c4890f3..000000000 --- a/docs/Neurons_White_A_data_hiveplot.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: White_A" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_A.csv - adult (A) N2U series ("The N2U series was from an old hermaphrodite that gave good quality pictures" - White et al. 1986).   Reader: White_A

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/White_A_Neurons_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_A_Neurons_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_White_L4_data.md b/docs/Neurons_White_L4_data.md deleted file mode 100644 index 0afe7be52..000000000 --- a/docs/Neurons_White_L4_data.md +++ /dev/null @@ -1,399 +0,0 @@ ---- -title: "Dataset: White_L4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_L4.csv - JSH series ("The JSH animal was a fourth stage (L4) larva" - White et al. 1986).   Reader: White_L4

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/White_L4_Neurons_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_L4_Neurons_Electrical.json" } - ``` - - -### Neurons (herm) (178) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (124) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (5) -
Full list of Other cells in this dataset -CEPshVL - | CEPshVR - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_White_L4_data_graph.md b/docs/Neurons_White_L4_data_graph.md deleted file mode 100644 index 69cb2cc34..000000000 --- a/docs/Neurons_White_L4_data_graph.md +++ /dev/null @@ -1,397 +0,0 @@ ---- -title: "Dataset: White_L4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_L4.csv - JSH series ("The JSH animal was a fourth stage (L4) larva" - White et al. 1986).   Reader: White_L4

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/White_L4_Neurons_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/White_L4_Neurons_Electrical_graph.json" } - ``` - - -### Neurons (herm) (178) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (124) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (5) -
Full list of Other cells in this dataset -CEPshVL - | CEPshVR - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_White_L4_data_hiveplot.md b/docs/Neurons_White_L4_data_hiveplot.md deleted file mode 100644 index c1a1330df..000000000 --- a/docs/Neurons_White_L4_data_hiveplot.md +++ /dev/null @@ -1,399 +0,0 @@ ---- -title: "Dataset: White_L4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_L4.csv - JSH series ("The JSH animal was a fourth stage (L4) larva" - White et al. 1986).   Reader: White_L4

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/White_L4_Neurons_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_L4_Neurons_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (178) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (124) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (5) -
Full list of Other cells in this dataset -CEPshVL - | CEPshVR - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_White_whole_data.md b/docs/Neurons_White_whole_data.md deleted file mode 100644 index d8b0dfee0..000000000 --- a/docs/Neurons_White_whole_data.md +++ /dev/null @@ -1,371 +0,0 @@ ---- -title: "Dataset: White_whole" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_whole.csv - all connectivity from White et al. 1986).   Reader: White_whole

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/White_whole_Neurons_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_whole_Neurons_Electrical.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (3) -
Full list of Muscles in this dataset -BWM - | pm1 - | pm4_UNSPECIFIED - -
- -### Other cells (6) -
Full list of Other cells in this dataset -GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_White_whole_data_graph.md b/docs/Neurons_White_whole_data_graph.md deleted file mode 100644 index 7c0c8eaf3..000000000 --- a/docs/Neurons_White_whole_data_graph.md +++ /dev/null @@ -1,369 +0,0 @@ ---- -title: "Dataset: White_whole" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_whole.csv - all connectivity from White et al. 1986).   Reader: White_whole

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/White_whole_Neurons_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/White_whole_Neurons_Electrical_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (3) -
Full list of Muscles in this dataset -BWM - | pm1 - | pm4_UNSPECIFIED - -
- -### Other cells (6) -
Full list of Other cells in this dataset -GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_White_whole_data_hiveplot.md b/docs/Neurons_White_whole_data_hiveplot.md deleted file mode 100644 index 660fae3b8..000000000 --- a/docs/Neurons_White_whole_data_hiveplot.md +++ /dev/null @@ -1,371 +0,0 @@ ---- -title: "Dataset: White_whole" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_whole.csv - all connectivity from White et al. 1986).   Reader: White_whole

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/White_whole_Neurons_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_whole_Neurons_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (3) -
Full list of Muscles in this dataset -BWM - | pm1 - | pm4_UNSPECIFIED - -
- -### Other cells (6) -
Full list of Other cells in this dataset -GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_Witvliet1_data.md b/docs/Neurons_Witvliet1_data.md deleted file mode 100644 index 1e13f288e..000000000 --- a/docs/Neurons_Witvliet1_data.md +++ /dev/null @@ -1,388 +0,0 @@ ---- -title: "Dataset: Witvliet1" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_1.xlsx - Witvliet dataset 1 (L1 stage).   Reader: WitvlietDataReader1

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet1_Neurons_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet1_Neurons_Electrical.json" } - ``` - - -### Neurons (herm) (161) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (141) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVL - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (17) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_Witvliet1_data_graph.md b/docs/Neurons_Witvliet1_data_graph.md deleted file mode 100644 index 85e4eca89..000000000 --- a/docs/Neurons_Witvliet1_data_graph.md +++ /dev/null @@ -1,386 +0,0 @@ ---- -title: "Dataset: Witvliet1" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_1.xlsx - Witvliet dataset 1 (L1 stage).   Reader: WitvlietDataReader1

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Witvliet1_Neurons_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet1_Neurons_Electrical_graph.json" } - ``` - - -### Neurons (herm) (161) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (141) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVL - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (17) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_Witvliet1_data_hiveplot.md b/docs/Neurons_Witvliet1_data_hiveplot.md deleted file mode 100644 index be12916e3..000000000 --- a/docs/Neurons_Witvliet1_data_hiveplot.md +++ /dev/null @@ -1,388 +0,0 @@ ---- -title: "Dataset: Witvliet1" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_1.xlsx - Witvliet dataset 1 (L1 stage).   Reader: WitvlietDataReader1

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet1_Neurons_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet1_Neurons_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (161) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (141) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVL - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (17) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_Witvliet2_data.md b/docs/Neurons_Witvliet2_data.md deleted file mode 100644 index d6f3732cf..000000000 --- a/docs/Neurons_Witvliet2_data.md +++ /dev/null @@ -1,394 +0,0 @@ ---- -title: "Dataset: Witvliet2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_2.xlsx - Witvliet dataset 2 (L1 stage).   Reader: WitvlietDataReader2

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet2_Neurons_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet2_Neurons_Electrical.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (21) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (11) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | exc_gl - -
diff --git a/docs/Neurons_Witvliet2_data_graph.md b/docs/Neurons_Witvliet2_data_graph.md deleted file mode 100644 index e8a844c4d..000000000 --- a/docs/Neurons_Witvliet2_data_graph.md +++ /dev/null @@ -1,392 +0,0 @@ ---- -title: "Dataset: Witvliet2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_2.xlsx - Witvliet dataset 2 (L1 stage).   Reader: WitvlietDataReader2

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Witvliet2_Neurons_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet2_Neurons_Electrical_graph.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (21) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (11) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | exc_gl - -
diff --git a/docs/Neurons_Witvliet2_data_hiveplot.md b/docs/Neurons_Witvliet2_data_hiveplot.md deleted file mode 100644 index 73c76dd73..000000000 --- a/docs/Neurons_Witvliet2_data_hiveplot.md +++ /dev/null @@ -1,394 +0,0 @@ ---- -title: "Dataset: Witvliet2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_2.xlsx - Witvliet dataset 2 (L1 stage).   Reader: WitvlietDataReader2

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet2_Neurons_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet2_Neurons_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (21) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (11) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | exc_gl - -
diff --git a/docs/Neurons_Witvliet3_data.md b/docs/Neurons_Witvliet3_data.md deleted file mode 100644 index 9baff3995..000000000 --- a/docs/Neurons_Witvliet3_data.md +++ /dev/null @@ -1,398 +0,0 @@ ---- -title: "Dataset: Witvliet3" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_3.xlsx - Witvliet dataset 3 (L1 stage).   Reader: WitvlietDataReader3

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet3_Neurons_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet3_Neurons_Electrical.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (27) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_Witvliet3_data_graph.md b/docs/Neurons_Witvliet3_data_graph.md deleted file mode 100644 index 7146e55f2..000000000 --- a/docs/Neurons_Witvliet3_data_graph.md +++ /dev/null @@ -1,396 +0,0 @@ ---- -title: "Dataset: Witvliet3" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_3.xlsx - Witvliet dataset 3 (L1 stage).   Reader: WitvlietDataReader3

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Witvliet3_Neurons_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet3_Neurons_Electrical_graph.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (27) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_Witvliet3_data_hiveplot.md b/docs/Neurons_Witvliet3_data_hiveplot.md deleted file mode 100644 index 46bb2ea72..000000000 --- a/docs/Neurons_Witvliet3_data_hiveplot.md +++ /dev/null @@ -1,398 +0,0 @@ ---- -title: "Dataset: Witvliet3" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_3.xlsx - Witvliet dataset 3 (L1 stage).   Reader: WitvlietDataReader3

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet3_Neurons_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet3_Neurons_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (27) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_Witvliet4_data.md b/docs/Neurons_Witvliet4_data.md deleted file mode 100644 index d9920b716..000000000 --- a/docs/Neurons_Witvliet4_data.md +++ /dev/null @@ -1,398 +0,0 @@ ---- -title: "Dataset: Witvliet4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_4.xlsx - Witvliet dataset 4 (L1 stage).   Reader: WitvlietDataReader4

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet4_Neurons_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet4_Neurons_Electrical.json" } - ``` - - -### Neurons (herm) (168) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (134) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | SABD - | SABVL - | SABVR - | SDQL - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (26) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (10) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_Witvliet4_data_graph.md b/docs/Neurons_Witvliet4_data_graph.md deleted file mode 100644 index 1fae99992..000000000 --- a/docs/Neurons_Witvliet4_data_graph.md +++ /dev/null @@ -1,396 +0,0 @@ ---- -title: "Dataset: Witvliet4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_4.xlsx - Witvliet dataset 4 (L1 stage).   Reader: WitvlietDataReader4

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Witvliet4_Neurons_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet4_Neurons_Electrical_graph.json" } - ``` - - -### Neurons (herm) (168) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (134) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | SABD - | SABVL - | SABVR - | SDQL - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (26) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (10) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_Witvliet4_data_hiveplot.md b/docs/Neurons_Witvliet4_data_hiveplot.md deleted file mode 100644 index bd5679492..000000000 --- a/docs/Neurons_Witvliet4_data_hiveplot.md +++ /dev/null @@ -1,398 +0,0 @@ ---- -title: "Dataset: Witvliet4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_4.xlsx - Witvliet dataset 4 (L1 stage).   Reader: WitvlietDataReader4

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet4_Neurons_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet4_Neurons_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (168) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (134) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | SABD - | SABVL - | SABVR - | SDQL - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (26) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (10) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_Witvliet5_data.md b/docs/Neurons_Witvliet5_data.md deleted file mode 100644 index a565be09f..000000000 --- a/docs/Neurons_Witvliet5_data.md +++ /dev/null @@ -1,399 +0,0 @@ ---- -title: "Dataset: Witvliet5" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_5.xlsx - Witvliet dataset 5 (L2 stage).   Reader: WitvlietDataReader5

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet5_Neurons_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet5_Neurons_Electrical.json" } - ``` - - -### Neurons (herm) (174) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DB1 - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (128) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (28) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_Witvliet5_data_graph.md b/docs/Neurons_Witvliet5_data_graph.md deleted file mode 100644 index 53732f7aa..000000000 --- a/docs/Neurons_Witvliet5_data_graph.md +++ /dev/null @@ -1,397 +0,0 @@ ---- -title: "Dataset: Witvliet5" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_5.xlsx - Witvliet dataset 5 (L2 stage).   Reader: WitvlietDataReader5

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Witvliet5_Neurons_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet5_Neurons_Electrical_graph.json" } - ``` - - -### Neurons (herm) (174) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DB1 - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (128) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (28) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_Witvliet5_data_hiveplot.md b/docs/Neurons_Witvliet5_data_hiveplot.md deleted file mode 100644 index b7d941a7f..000000000 --- a/docs/Neurons_Witvliet5_data_hiveplot.md +++ /dev/null @@ -1,399 +0,0 @@ ---- -title: "Dataset: Witvliet5" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_5.xlsx - Witvliet dataset 5 (L2 stage).   Reader: WitvlietDataReader5

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet5_Neurons_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet5_Neurons_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (174) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DB1 - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (128) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (28) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_Witvliet6_data.md b/docs/Neurons_Witvliet6_data.md deleted file mode 100644 index 4ebb0a7da..000000000 --- a/docs/Neurons_Witvliet6_data.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Witvliet6" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_6.xlsx - Witvliet dataset 6 (L3 stage).   Reader: WitvlietDataReader6

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet6_Neurons_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet6_Neurons_Electrical.json" } - ``` - - -### Neurons (herm) (175) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (127) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_Witvliet6_data_graph.md b/docs/Neurons_Witvliet6_data_graph.md deleted file mode 100644 index 778fef8f9..000000000 --- a/docs/Neurons_Witvliet6_data_graph.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: Witvliet6" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_6.xlsx - Witvliet dataset 6 (L3 stage).   Reader: WitvlietDataReader6

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Witvliet6_Neurons_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet6_Neurons_Electrical_graph.json" } - ``` - - -### Neurons (herm) (175) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (127) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_Witvliet6_data_hiveplot.md b/docs/Neurons_Witvliet6_data_hiveplot.md deleted file mode 100644 index 6234311c9..000000000 --- a/docs/Neurons_Witvliet6_data_hiveplot.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Witvliet6" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_6.xlsx - Witvliet dataset 6 (L3 stage).   Reader: WitvlietDataReader6

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet6_Neurons_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet6_Neurons_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (175) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (127) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Neurons_Witvliet7_data.md b/docs/Neurons_Witvliet7_data.md deleted file mode 100644 index 331710bfe..000000000 --- a/docs/Neurons_Witvliet7_data.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Witvliet7" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_7.xlsx - Witvliet dataset 7 (adult stage).   Reader: WitvlietDataReader7

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet7_Neurons_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet7_Neurons_Electrical.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVR - -
diff --git a/docs/Neurons_Witvliet7_data_graph.md b/docs/Neurons_Witvliet7_data_graph.md deleted file mode 100644 index 05ec4afcb..000000000 --- a/docs/Neurons_Witvliet7_data_graph.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: Witvliet7" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_7.xlsx - Witvliet dataset 7 (adult stage).   Reader: WitvlietDataReader7

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Witvliet7_Neurons_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet7_Neurons_Electrical_graph.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVR - -
diff --git a/docs/Neurons_Witvliet7_data_hiveplot.md b/docs/Neurons_Witvliet7_data_hiveplot.md deleted file mode 100644 index d4546feb2..000000000 --- a/docs/Neurons_Witvliet7_data_hiveplot.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Witvliet7" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_7.xlsx - Witvliet dataset 7 (adult stage).   Reader: WitvlietDataReader7

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet7_Neurons_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet7_Neurons_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVR - -
diff --git a/docs/Neurons_Witvliet8_data.md b/docs/Neurons_Witvliet8_data.md deleted file mode 100644 index 8919bc16a..000000000 --- a/docs/Neurons_Witvliet8_data.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: Witvliet8" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_8.xlsx - Witvliet dataset 8 (adult stage).   Reader: WitvlietDataReader8

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet8_Neurons_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet8_Neurons_Electrical.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (7) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRR - | GLRVL - -
diff --git a/docs/Neurons_Witvliet8_data_graph.md b/docs/Neurons_Witvliet8_data_graph.md deleted file mode 100644 index ef033e938..000000000 --- a/docs/Neurons_Witvliet8_data_graph.md +++ /dev/null @@ -1,399 +0,0 @@ ---- -title: "Dataset: Witvliet8" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_8.xlsx - Witvliet dataset 8 (adult stage).   Reader: WitvlietDataReader8

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Witvliet8_Neurons_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet8_Neurons_Electrical_graph.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (7) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRR - | GLRVL - -
diff --git a/docs/Neurons_Witvliet8_data_hiveplot.md b/docs/Neurons_Witvliet8_data_hiveplot.md deleted file mode 100644 index 213ec443e..000000000 --- a/docs/Neurons_Witvliet8_data_hiveplot.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: Witvliet8" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_8.xlsx - Witvliet dataset 8 (adult stage).   Reader: WitvlietDataReader8

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet8_Neurons_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet8_Neurons_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (7) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRR - | GLRVL - -
diff --git a/docs/Neurons_WormNeuroAtlas_data.md b/docs/Neurons_WormNeuroAtlas_data.md deleted file mode 100644 index 959bce85f..000000000 --- a/docs/Neurons_WormNeuroAtlas_data.md +++ /dev/null @@ -1,363 +0,0 @@ ---- -title: "Dataset: WormNeuroAtlas" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)** for neuronal connectivity.   Reader: WormNeuroAtlasReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Neurons_Chemical_Exc.json" } - ``` - -=== "Chemical Inh" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Neurons_Chemical_Inh.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Neurons_Electrical.json" } - ``` - - -### Neurons (herm) (298) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (4) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AWCL - | AWCR - | CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_WormNeuroAtlas_data_graph.md b/docs/Neurons_WormNeuroAtlas_data_graph.md deleted file mode 100644 index 6799c8142..000000000 --- a/docs/Neurons_WormNeuroAtlas_data_graph.md +++ /dev/null @@ -1,360 +0,0 @@ ---- -title: "Dataset: WormNeuroAtlas" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)** for neuronal connectivity.   Reader: WormNeuroAtlasReader

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/WormNeuroAtlas_Neurons_Chemical_Exc_graph.json" } - ``` - -=== "Chemical Inh" - - ```plotly - { "file_path": "./assets/WormNeuroAtlas_Neurons_Chemical_Inh_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/WormNeuroAtlas_Neurons_Electrical_graph.json" } - ``` - - -### Neurons (herm) (298) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (4) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AWCL - | AWCR - | CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Neurons_WormNeuroAtlas_data_hiveplot.md b/docs/Neurons_WormNeuroAtlas_data_hiveplot.md deleted file mode 100644 index d9189ee0e..000000000 --- a/docs/Neurons_WormNeuroAtlas_data_hiveplot.md +++ /dev/null @@ -1,363 +0,0 @@ ---- -title: "Dataset: WormNeuroAtlas" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All 302 hermaphrodite neurons (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)** for neuronal connectivity.   Reader: WormNeuroAtlasReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Neurons_Chemical_Exc_hiveplot.json" } - ``` - -=== "Chemical Inh" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Neurons_Chemical_Inh_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Neurons_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (298) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (4) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AWCL - | AWCR - | CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_Bentley2016_MA_data.md b/docs/Pharynx_Bentley2016_MA_data.md deleted file mode 100644 index 230b4d49f..000000000 --- a/docs/Pharynx_Bentley2016_MA_data.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Bentley2016_MA" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on monoaminergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasMAReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/Bentley2016_MA_Pharynx_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (233) -
Full list of Neurons (hermaphrodite only) in this dataset -ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AIYL - | AIYR - | AIZL - | AIZR - | ALML - | ALMR - | ALNL - | ALNR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASKL - | ASKR - | AUAL - | AUAR - | AVBL - | AVBR - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVL - | AVM - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVQL - | PVQR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIML - | RIMR - | RIS - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (69) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | AINL - | AINR - | ALA - | AQR - | ASJL - | ASJR - | AVAL - | AVAR - | AVDL - | AVDR - | AVEL - | AVER - | AVG - | AVKL - | AVKR - | AWAL - | AWAR - | AWCL - | AWCR - | CANL - | CANR - | DVB - | I5 - | MI - | PDB - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVR - | PVWL - | PVWR - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIPL - | RIPR - | RIR - | RIVL - | RIVR - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_Bentley2016_MA_data_graph.md b/docs/Pharynx_Bentley2016_MA_data_graph.md deleted file mode 100644 index 05f2ff635..000000000 --- a/docs/Pharynx_Bentley2016_MA_data_graph.md +++ /dev/null @@ -1,348 +0,0 @@ ---- -title: "Dataset: Bentley2016_MA" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on monoaminergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasMAReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/Bentley2016_MA_Pharynx_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (233) -
Full list of Neurons (hermaphrodite only) in this dataset -ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AIYL - | AIYR - | AIZL - | AIZR - | ALML - | ALMR - | ALNL - | ALNR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASKL - | ASKR - | AUAL - | AUAR - | AVBL - | AVBR - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVL - | AVM - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVQL - | PVQR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIML - | RIMR - | RIS - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (69) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | AINL - | AINR - | ALA - | AQR - | ASJL - | ASJR - | AVAL - | AVAR - | AVDL - | AVDR - | AVEL - | AVER - | AVG - | AVKL - | AVKR - | AWAL - | AWAR - | AWCL - | AWCR - | CANL - | CANR - | DVB - | I5 - | MI - | PDB - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVR - | PVWL - | PVWR - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIPL - | RIPR - | RIR - | RIVL - | RIVR - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_Bentley2016_MA_data_hiveplot.md b/docs/Pharynx_Bentley2016_MA_data_hiveplot.md deleted file mode 100644 index 2e142ef77..000000000 --- a/docs/Pharynx_Bentley2016_MA_data_hiveplot.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Bentley2016_MA" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on monoaminergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasMAReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/Bentley2016_MA_Pharynx_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (233) -
Full list of Neurons (hermaphrodite only) in this dataset -ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AIYL - | AIYR - | AIZL - | AIZR - | ALML - | ALMR - | ALNL - | ALNR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASKL - | ASKR - | AUAL - | AUAR - | AVBL - | AVBR - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVL - | AVM - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVQL - | PVQR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIML - | RIMR - | RIS - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (69) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | AINL - | AINR - | ALA - | AQR - | ASJL - | ASJR - | AVAL - | AVAR - | AVDL - | AVDR - | AVEL - | AVER - | AVG - | AVKL - | AVKR - | AWAL - | AWAR - | AWCL - | AWCR - | CANL - | CANR - | DVB - | I5 - | MI - | PDB - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVR - | PVWL - | PVWR - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIPL - | RIPR - | RIR - | RIVL - | RIVR - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_Bentley2016_PEP_data.md b/docs/Pharynx_Bentley2016_PEP_data.md deleted file mode 100644 index f8627e2c6..000000000 --- a/docs/Pharynx_Bentley2016_PEP_data.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Bentley2016_PEP" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on peptidergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasPepReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/Bentley2016_PEP_Pharynx_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_Bentley2016_PEP_data_graph.md b/docs/Pharynx_Bentley2016_PEP_data_graph.md deleted file mode 100644 index 269589e3b..000000000 --- a/docs/Pharynx_Bentley2016_PEP_data_graph.md +++ /dev/null @@ -1,348 +0,0 @@ ---- -title: "Dataset: Bentley2016_PEP" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on peptidergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasPepReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/Bentley2016_PEP_Pharynx_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_Bentley2016_PEP_data_hiveplot.md b/docs/Pharynx_Bentley2016_PEP_data_hiveplot.md deleted file mode 100644 index 6a6639196..000000000 --- a/docs/Pharynx_Bentley2016_PEP_data_hiveplot.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Bentley2016_PEP" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on peptidergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasPepReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/Bentley2016_PEP_Pharynx_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_Cook2019Herm_data.md b/docs/Pharynx_Cook2019Herm_data.md deleted file mode 100644 index 4c69e1b9e..000000000 --- a/docs/Pharynx_Cook2019Herm_data.md +++ /dev/null @@ -1,530 +0,0 @@ ---- -title: "Dataset: Cook2019Herm" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of hermaphrodite.   Reader: Cook2019HermReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Cook2019Herm_Pharynx_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2019Herm_Pharynx_Electrical.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (135) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | um1AL - | um1AR - | um1PL - | um1PR - | um2AL - | um2AR - | um2PL - | um2PR - | vm1AL - | vm1AR - | vm1PL - | vm1PR - | vm2AL - | vm2AR - | vm2PL - | vm2PR - -
- -### Other cells (36) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | hmc - | hyp - | int - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Pharynx_Cook2019Herm_data_graph.md b/docs/Pharynx_Cook2019Herm_data_graph.md deleted file mode 100644 index 1f4e25f04..000000000 --- a/docs/Pharynx_Cook2019Herm_data_graph.md +++ /dev/null @@ -1,528 +0,0 @@ ---- -title: "Dataset: Cook2019Herm" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of hermaphrodite.   Reader: Cook2019HermReader

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Cook2019Herm_Pharynx_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Cook2019Herm_Pharynx_Electrical_graph.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (135) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | um1AL - | um1AR - | um1PL - | um1PR - | um2AL - | um2AR - | um2PL - | um2PR - | vm1AL - | vm1AR - | vm1PL - | vm1PR - | vm2AL - | vm2AR - | vm2PL - | vm2PR - -
- -### Other cells (36) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | hmc - | hyp - | int - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Pharynx_Cook2019Herm_data_hiveplot.md b/docs/Pharynx_Cook2019Herm_data_hiveplot.md deleted file mode 100644 index aa9d72086..000000000 --- a/docs/Pharynx_Cook2019Herm_data_hiveplot.md +++ /dev/null @@ -1,530 +0,0 @@ ---- -title: "Dataset: Cook2019Herm" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of hermaphrodite.   Reader: Cook2019HermReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Cook2019Herm_Pharynx_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2019Herm_Pharynx_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (135) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | um1AL - | um1AR - | um1PL - | um1PR - | um2AL - | um2AR - | um2PL - | um2PR - | vm1AL - | vm1AR - | vm1PL - | vm1PR - | vm2AL - | vm2AR - | vm2PL - | vm2PR - -
- -### Other cells (36) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | hmc - | hyp - | int - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Pharynx_Cook2019Male_data.md b/docs/Pharynx_Cook2019Male_data.md deleted file mode 100644 index c0e42b177..000000000 --- a/docs/Pharynx_Cook2019Male_data.md +++ /dev/null @@ -1,653 +0,0 @@ ---- -title: "Dataset: Cook2019Male" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of male.   Reader: Cook2019MaleReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Cook2019Male_Pharynx_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2019Male_Pharynx_Electrical.json" } - ``` - - -### Neurons (herm) (292) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (10) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAR - | BAGR - | HSNL - | HSNR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (156) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | ailL - | ailR - | aobL - | aobR - | cdlL - | cdlR - | dglL1 - | dglL2 - | dglL3 - | dglL4 - | dglL5 - | dglL6 - | dglL7 - | dglR1 - | dglR2 - | dglR3 - | dglR4 - | dglR5 - | dglR6 - | dglR7 - | dglR8 - | dspL - | dspR - | dsrL - | dsrR - | gecL - | gecR - | grtL - | grtR - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | pobL - | pobR - | polL - | polR - | vspL - | vspR - | vsrL - | vsrR - -
- -### Other cells (135) -
Full list of Other cells in this dataset -CA02 - | CA03 - | CA04 - | CA05 - | CA06 - | CA07 - | CA08 - | CA09 - | CEMDL - | CEMDR - | CEMVL - | CEMVR - | CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | CP01 - | CP02 - | CP03 - | CP04 - | CP05 - | CP06 - | CP07 - | CP08 - | CP09 - | DVE - | DVF - | DX1 - | DX2 - | DX3 - | EF1 - | EF2 - | EF3 - | GLRDR - | GLRVL - | GLRVR - | HOA - | HOB - | MCML - | MCMR - | PCAL - | PCAR - | PCBL - | PCBR - | PCCL - | PCCR - | PDC - | PGA - | PHDL - | PHDR - | PVV - | PVX - | PVY - | PVZ - | R1AL - | R1AR - | R1BL - | R1BR - | R1shL - | R1shR - | R2AL - | R2AR - | R2BL - | R2BR - | R2shL - | R2shR - | R3AL - | R3AR - | R3BL - | R3BR - | R3shL - | R3shR - | R4AL - | R4AR - | R4BL - | R4BR - | R4shL - | R5AL - | R5AR - | R5BL - | R5BR - | R5shL - | R5shR - | R6AL - | R6AR - | R6BL - | R6BR - | R7AL - | R7AR - | R7BL - | R7BR - | R7shL - | R7shR - | R8AL - | R8AR - | R8BL - | R8BR - | R9AL - | R9AR - | R9BL - | R9BR - | R9shL - | SPCL - | SPCR - | SPDL - | SPDR - | SPVL - | SPVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | gonad - | hmc - | hyp - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - | proctodeum - -
diff --git a/docs/Pharynx_Cook2019Male_data_graph.md b/docs/Pharynx_Cook2019Male_data_graph.md deleted file mode 100644 index 137a227bc..000000000 --- a/docs/Pharynx_Cook2019Male_data_graph.md +++ /dev/null @@ -1,651 +0,0 @@ ---- -title: "Dataset: Cook2019Male" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of male.   Reader: Cook2019MaleReader

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Cook2019Male_Pharynx_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Cook2019Male_Pharynx_Electrical_graph.json" } - ``` - - -### Neurons (herm) (292) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (10) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAR - | BAGR - | HSNL - | HSNR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (156) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | ailL - | ailR - | aobL - | aobR - | cdlL - | cdlR - | dglL1 - | dglL2 - | dglL3 - | dglL4 - | dglL5 - | dglL6 - | dglL7 - | dglR1 - | dglR2 - | dglR3 - | dglR4 - | dglR5 - | dglR6 - | dglR7 - | dglR8 - | dspL - | dspR - | dsrL - | dsrR - | gecL - | gecR - | grtL - | grtR - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | pobL - | pobR - | polL - | polR - | vspL - | vspR - | vsrL - | vsrR - -
- -### Other cells (135) -
Full list of Other cells in this dataset -CA02 - | CA03 - | CA04 - | CA05 - | CA06 - | CA07 - | CA08 - | CA09 - | CEMDL - | CEMDR - | CEMVL - | CEMVR - | CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | CP01 - | CP02 - | CP03 - | CP04 - | CP05 - | CP06 - | CP07 - | CP08 - | CP09 - | DVE - | DVF - | DX1 - | DX2 - | DX3 - | EF1 - | EF2 - | EF3 - | GLRDR - | GLRVL - | GLRVR - | HOA - | HOB - | MCML - | MCMR - | PCAL - | PCAR - | PCBL - | PCBR - | PCCL - | PCCR - | PDC - | PGA - | PHDL - | PHDR - | PVV - | PVX - | PVY - | PVZ - | R1AL - | R1AR - | R1BL - | R1BR - | R1shL - | R1shR - | R2AL - | R2AR - | R2BL - | R2BR - | R2shL - | R2shR - | R3AL - | R3AR - | R3BL - | R3BR - | R3shL - | R3shR - | R4AL - | R4AR - | R4BL - | R4BR - | R4shL - | R5AL - | R5AR - | R5BL - | R5BR - | R5shL - | R5shR - | R6AL - | R6AR - | R6BL - | R6BR - | R7AL - | R7AR - | R7BL - | R7BR - | R7shL - | R7shR - | R8AL - | R8AR - | R8BL - | R8BR - | R9AL - | R9AR - | R9BL - | R9BR - | R9shL - | SPCL - | SPCR - | SPDL - | SPDR - | SPVL - | SPVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | gonad - | hmc - | hyp - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - | proctodeum - -
diff --git a/docs/Pharynx_Cook2019Male_data_hiveplot.md b/docs/Pharynx_Cook2019Male_data_hiveplot.md deleted file mode 100644 index 3bb0f27aa..000000000 --- a/docs/Pharynx_Cook2019Male_data_hiveplot.md +++ /dev/null @@ -1,653 +0,0 @@ ---- -title: "Dataset: Cook2019Male" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of male.   Reader: Cook2019MaleReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Cook2019Male_Pharynx_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2019Male_Pharynx_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (292) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (10) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAR - | BAGR - | HSNL - | HSNR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (156) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | ailL - | ailR - | aobL - | aobR - | cdlL - | cdlR - | dglL1 - | dglL2 - | dglL3 - | dglL4 - | dglL5 - | dglL6 - | dglL7 - | dglR1 - | dglR2 - | dglR3 - | dglR4 - | dglR5 - | dglR6 - | dglR7 - | dglR8 - | dspL - | dspR - | dsrL - | dsrR - | gecL - | gecR - | grtL - | grtR - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | pobL - | pobR - | polL - | polR - | vspL - | vspR - | vsrL - | vsrR - -
- -### Other cells (135) -
Full list of Other cells in this dataset -CA02 - | CA03 - | CA04 - | CA05 - | CA06 - | CA07 - | CA08 - | CA09 - | CEMDL - | CEMDR - | CEMVL - | CEMVR - | CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | CP01 - | CP02 - | CP03 - | CP04 - | CP05 - | CP06 - | CP07 - | CP08 - | CP09 - | DVE - | DVF - | DX1 - | DX2 - | DX3 - | EF1 - | EF2 - | EF3 - | GLRDR - | GLRVL - | GLRVR - | HOA - | HOB - | MCML - | MCMR - | PCAL - | PCAR - | PCBL - | PCBR - | PCCL - | PCCR - | PDC - | PGA - | PHDL - | PHDR - | PVV - | PVX - | PVY - | PVZ - | R1AL - | R1AR - | R1BL - | R1BR - | R1shL - | R1shR - | R2AL - | R2AR - | R2BL - | R2BR - | R2shL - | R2shR - | R3AL - | R3AR - | R3BL - | R3BR - | R3shL - | R3shR - | R4AL - | R4AR - | R4BL - | R4BR - | R4shL - | R5AL - | R5AR - | R5BL - | R5BR - | R5shL - | R5shR - | R6AL - | R6AR - | R6BL - | R6BR - | R7AL - | R7AR - | R7BL - | R7BR - | R7shL - | R7shR - | R8AL - | R8AR - | R8BL - | R8BR - | R9AL - | R9AR - | R9BL - | R9BR - | R9shL - | SPCL - | SPCR - | SPDL - | SPDR - | SPVL - | SPVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | gonad - | hmc - | hyp - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - | proctodeum - -
diff --git a/docs/Pharynx_Cook2020_data.md b/docs/Pharynx_Cook2020_data.md deleted file mode 100644 index 18410f10f..000000000 --- a/docs/Pharynx_Cook2020_data.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Cook2020" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2020 -

Data extracted from cne24932-sup-0004-supinfo4.csv and cne24932-sup-0005-supinfo5.csv for connectivity of pharyngeal neurons, muscles and other cells.   Reader: Cook2020DataReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Cook2020_Pharynx_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2020_Pharynx_Electrical.json" } - ``` - - -### Neurons (herm) (22) -
Full list of Neurons (hermaphrodite only) in this dataset -I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | RIPL - | RIPR - -
- -### Missing neurons (280) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (20) -
Full list of Muscles in this dataset -pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - -
- -### Other cells (21) -
Full list of Other cells in this dataset -bm - | e2DL - | e2DR - | e2V - | e3D - | e3VL - | e3VR - | g1AL - | g1AR - | g1P - | g2L - | g2R - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Pharynx_Cook2020_data_graph.md b/docs/Pharynx_Cook2020_data_graph.md deleted file mode 100644 index b049fca0d..000000000 --- a/docs/Pharynx_Cook2020_data_graph.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: Cook2020" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2020 -

Data extracted from cne24932-sup-0004-supinfo4.csv and cne24932-sup-0005-supinfo5.csv for connectivity of pharyngeal neurons, muscles and other cells.   Reader: Cook2020DataReader

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Cook2020_Pharynx_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Cook2020_Pharynx_Electrical_graph.json" } - ``` - - -### Neurons (herm) (22) -
Full list of Neurons (hermaphrodite only) in this dataset -I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | RIPL - | RIPR - -
- -### Missing neurons (280) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (20) -
Full list of Muscles in this dataset -pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - -
- -### Other cells (21) -
Full list of Other cells in this dataset -bm - | e2DL - | e2DR - | e2V - | e3D - | e3VL - | e3VR - | g1AL - | g1AR - | g1P - | g2L - | g2R - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Pharynx_Cook2020_data_hiveplot.md b/docs/Pharynx_Cook2020_data_hiveplot.md deleted file mode 100644 index ba9241e54..000000000 --- a/docs/Pharynx_Cook2020_data_hiveplot.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Cook2020" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2020 -

Data extracted from cne24932-sup-0004-supinfo4.csv and cne24932-sup-0005-supinfo5.csv for connectivity of pharyngeal neurons, muscles and other cells.   Reader: Cook2020DataReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Cook2020_Pharynx_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2020_Pharynx_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (22) -
Full list of Neurons (hermaphrodite only) in this dataset -I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | RIPL - | RIPR - -
- -### Missing neurons (280) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (20) -
Full list of Muscles in this dataset -pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - -
- -### Other cells (21) -
Full list of Other cells in this dataset -bm - | e2DL - | e2DR - | e2V - | e3D - | e3VL - | e3VR - | g1AL - | g1AR - | g1P - | g2L - | g2R - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Pharynx_Randi2023_data.md b/docs/Pharynx_Randi2023_data.md deleted file mode 100644 index 28414b0e6..000000000 --- a/docs/Pharynx_Randi2023_data.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Randi2023" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data on functional connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasFuncReader

- -=== "Functional" - -
- ```plotly - { "file_path": "./assets/Randi2023_Pharynx_Functional.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | AQR - | AS1 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DB1 - | DB2 - | DD1 - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SIADL - | SIAVL - | SIAVR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VB1 - | VB2 - | VD1 - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AIAL - | AIAR - | ALML - | ALMR - | ALNL - | ALNR - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVM - | BDUL - | BDUR - | CANL - | CANR - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | HSNL - | HSNR - | I5 - | LUAL - | LUAR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RMHR - | SDQL - | SDQR - | SIADR - | SIBDL - | SIBDR - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB10 - | VB11 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_Randi2023_data_graph.md b/docs/Pharynx_Randi2023_data_graph.md deleted file mode 100644 index cc452d7d2..000000000 --- a/docs/Pharynx_Randi2023_data_graph.md +++ /dev/null @@ -1,348 +0,0 @@ ---- -title: "Dataset: Randi2023" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data on functional connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasFuncReader

- -=== "Functional" - - ```plotly - { "file_path": "./assets/Randi2023_Pharynx_Functional_graph.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | AQR - | AS1 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DB1 - | DB2 - | DD1 - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SIADL - | SIAVL - | SIAVR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VB1 - | VB2 - | VD1 - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AIAL - | AIAR - | ALML - | ALMR - | ALNL - | ALNR - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVM - | BDUL - | BDUR - | CANL - | CANR - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | HSNL - | HSNR - | I5 - | LUAL - | LUAR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RMHR - | SDQL - | SDQR - | SIADR - | SIBDL - | SIBDR - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB10 - | VB11 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_Randi2023_data_hiveplot.md b/docs/Pharynx_Randi2023_data_hiveplot.md deleted file mode 100644 index fa451858d..000000000 --- a/docs/Pharynx_Randi2023_data_hiveplot.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Randi2023" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data on functional connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasFuncReader

- -=== "Functional" - -
- ```plotly - { "file_path": "./assets/Randi2023_Pharynx_Functional_hiveplot.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | AQR - | AS1 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DB1 - | DB2 - | DD1 - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SIADL - | SIAVL - | SIAVR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VB1 - | VB2 - | VD1 - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AIAL - | AIAR - | ALML - | ALMR - | ALNL - | ALNR - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVM - | BDUL - | BDUR - | CANL - | CANR - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | HSNL - | HSNR - | I5 - | LUAL - | LUAR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RMHR - | SDQL - | SDQR - | SIADR - | SIBDL - | SIBDR - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB10 - | VB11 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_RipollSanchezLongRange_data.md b/docs/Pharynx_RipollSanchezLongRange_data.md deleted file mode 100644 index 73b7d0949..000000000 --- a/docs/Pharynx_RipollSanchezLongRange_data.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezLongRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_long_range_model.csv for long range model of neuropedtidergic connectome.   Reader: RipollSanchezLongRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezLongRange_Pharynx_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_RipollSanchezLongRange_data_graph.md b/docs/Pharynx_RipollSanchezLongRange_data_graph.md deleted file mode 100644 index 6e8784541..000000000 --- a/docs/Pharynx_RipollSanchezLongRange_data_graph.md +++ /dev/null @@ -1,345 +0,0 @@ ---- -title: "Dataset: RipollSanchezLongRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_long_range_model.csv for long range model of neuropedtidergic connectome.   Reader: RipollSanchezLongRangeReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/RipollSanchezLongRange_Pharynx_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_RipollSanchezLongRange_data_hiveplot.md b/docs/Pharynx_RipollSanchezLongRange_data_hiveplot.md deleted file mode 100644 index 0afcda039..000000000 --- a/docs/Pharynx_RipollSanchezLongRange_data_hiveplot.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezLongRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_long_range_model.csv for long range model of neuropedtidergic connectome.   Reader: RipollSanchezLongRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezLongRange_Pharynx_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_RipollSanchezMidRange_data.md b/docs/Pharynx_RipollSanchezMidRange_data.md deleted file mode 100644 index 93061676e..000000000 --- a/docs/Pharynx_RipollSanchezMidRange_data.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezMidRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_mid_range_model.csv for mid range model of neuropedtidergic connectome.   Reader: RipollSanchezMidRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezMidRange_Pharynx_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_RipollSanchezMidRange_data_graph.md b/docs/Pharynx_RipollSanchezMidRange_data_graph.md deleted file mode 100644 index 355c75047..000000000 --- a/docs/Pharynx_RipollSanchezMidRange_data_graph.md +++ /dev/null @@ -1,345 +0,0 @@ ---- -title: "Dataset: RipollSanchezMidRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_mid_range_model.csv for mid range model of neuropedtidergic connectome.   Reader: RipollSanchezMidRangeReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/RipollSanchezMidRange_Pharynx_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_RipollSanchezMidRange_data_hiveplot.md b/docs/Pharynx_RipollSanchezMidRange_data_hiveplot.md deleted file mode 100644 index b79d28d65..000000000 --- a/docs/Pharynx_RipollSanchezMidRange_data_hiveplot.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezMidRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_mid_range_model.csv for mid range model of neuropedtidergic connectome.   Reader: RipollSanchezMidRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezMidRange_Pharynx_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_RipollSanchezShortRange_data.md b/docs/Pharynx_RipollSanchezShortRange_data.md deleted file mode 100644 index 6cc95ecef..000000000 --- a/docs/Pharynx_RipollSanchezShortRange_data.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezShortRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_short_range_model.csv for short range model of neuropedtidergic connectome.   Reader: RipollSanchezShortRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezShortRange_Pharynx_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_RipollSanchezShortRange_data_graph.md b/docs/Pharynx_RipollSanchezShortRange_data_graph.md deleted file mode 100644 index d9628b496..000000000 --- a/docs/Pharynx_RipollSanchezShortRange_data_graph.md +++ /dev/null @@ -1,345 +0,0 @@ ---- -title: "Dataset: RipollSanchezShortRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_short_range_model.csv for short range model of neuropedtidergic connectome.   Reader: RipollSanchezShortRangeReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/RipollSanchezShortRange_Pharynx_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_RipollSanchezShortRange_data_hiveplot.md b/docs/Pharynx_RipollSanchezShortRange_data_hiveplot.md deleted file mode 100644 index 839249eb2..000000000 --- a/docs/Pharynx_RipollSanchezShortRange_data_hiveplot.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezShortRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_short_range_model.csv for short range model of neuropedtidergic connectome.   Reader: RipollSanchezShortRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezShortRange_Pharynx_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_SSData_data.md b/docs/Pharynx_SSData_data.md deleted file mode 100644 index 142d6f653..000000000 --- a/docs/Pharynx_SSData_data.md +++ /dev/null @@ -1,456 +0,0 @@ ---- -title: "Dataset: SSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from CElegansNeuronTables.xls for neuronal connectivity. Note: legacy dataset (based on White_whole) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: SpreadsheetDataReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/SSData_Pharynx_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/SSData_Pharynx_Electrical.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (97) -
Full list of Muscles in this dataset -MANAL - | MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | MVULVA - -
- -### Other cells (0) diff --git a/docs/Pharynx_SSData_data_graph.md b/docs/Pharynx_SSData_data_graph.md deleted file mode 100644 index 073fe0cb3..000000000 --- a/docs/Pharynx_SSData_data_graph.md +++ /dev/null @@ -1,454 +0,0 @@ ---- -title: "Dataset: SSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from CElegansNeuronTables.xls for neuronal connectivity. Note: legacy dataset (based on White_whole) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: SpreadsheetDataReader

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/SSData_Pharynx_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/SSData_Pharynx_Electrical_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (97) -
Full list of Muscles in this dataset -MANAL - | MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | MVULVA - -
- -### Other cells (0) diff --git a/docs/Pharynx_SSData_data_hiveplot.md b/docs/Pharynx_SSData_data_hiveplot.md deleted file mode 100644 index 9954216b4..000000000 --- a/docs/Pharynx_SSData_data_hiveplot.md +++ /dev/null @@ -1,456 +0,0 @@ ---- -title: "Dataset: SSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from CElegansNeuronTables.xls for neuronal connectivity. Note: legacy dataset (based on White_whole) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: SpreadsheetDataReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/SSData_Pharynx_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/SSData_Pharynx_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (97) -
Full list of Muscles in this dataset -MANAL - | MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | MVULVA - -
- -### Other cells (0) diff --git a/docs/Pharynx_UpdSSData2_data.md b/docs/Pharynx_UpdSSData2_data.md deleted file mode 100644 index d4bb87eaf..000000000 --- a/docs/Pharynx_UpdSSData2_data.md +++ /dev/null @@ -1,454 +0,0 @@ ---- -title: "Dataset: UpdSSData2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist_MODIFIED.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader2

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Pharynx_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Pharynx_Electrical.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Pharynx_UpdSSData2_data_graph.md b/docs/Pharynx_UpdSSData2_data_graph.md deleted file mode 100644 index f4a221544..000000000 --- a/docs/Pharynx_UpdSSData2_data_graph.md +++ /dev/null @@ -1,452 +0,0 @@ ---- -title: "Dataset: UpdSSData2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist_MODIFIED.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader2

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/UpdSSData2_Pharynx_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/UpdSSData2_Pharynx_Electrical_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Pharynx_UpdSSData2_data_hiveplot.md b/docs/Pharynx_UpdSSData2_data_hiveplot.md deleted file mode 100644 index 178d5df2d..000000000 --- a/docs/Pharynx_UpdSSData2_data_hiveplot.md +++ /dev/null @@ -1,454 +0,0 @@ ---- -title: "Dataset: UpdSSData2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist_MODIFIED.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader2

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Pharynx_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Pharynx_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Pharynx_UpdSSData_data.md b/docs/Pharynx_UpdSSData_data.md deleted file mode 100644 index 61b05ee06..000000000 --- a/docs/Pharynx_UpdSSData_data.md +++ /dev/null @@ -1,454 +0,0 @@ ---- -title: "Dataset: UpdSSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Pharynx_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Pharynx_Electrical.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Pharynx_UpdSSData_data_graph.md b/docs/Pharynx_UpdSSData_data_graph.md deleted file mode 100644 index 462a1b26d..000000000 --- a/docs/Pharynx_UpdSSData_data_graph.md +++ /dev/null @@ -1,452 +0,0 @@ ---- -title: "Dataset: UpdSSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/UpdSSData_Pharynx_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/UpdSSData_Pharynx_Electrical_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Pharynx_UpdSSData_data_hiveplot.md b/docs/Pharynx_UpdSSData_data_hiveplot.md deleted file mode 100644 index fa0137b78..000000000 --- a/docs/Pharynx_UpdSSData_data_hiveplot.md +++ /dev/null @@ -1,454 +0,0 @@ ---- -title: "Dataset: UpdSSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Pharynx_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Pharynx_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Pharynx_Varshney_data.md b/docs/Pharynx_Varshney_data.md deleted file mode 100644 index 20ef41c07..000000000 --- a/docs/Pharynx_Varshney_data.md +++ /dev/null @@ -1,343 +0,0 @@ ---- -title: "Dataset: Varshney" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Varshney et al. 2011 -

Data extracted from NeuronConnectFormatted.xlsx for neuronal connectivity.   Reader: VarshneyDataReader

- -No connections present in this view - -### Neurons (herm) (279) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (23) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_Varshney_data_graph.md b/docs/Pharynx_Varshney_data_graph.md deleted file mode 100644 index bf64f9795..000000000 --- a/docs/Pharynx_Varshney_data_graph.md +++ /dev/null @@ -1,343 +0,0 @@ ---- -title: "Dataset: Varshney" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Varshney et al. 2011 -

Data extracted from NeuronConnectFormatted.xlsx for neuronal connectivity.   Reader: VarshneyDataReader

- -No connections present in this view - -### Neurons (herm) (279) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (23) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_Varshney_data_hiveplot.md b/docs/Pharynx_Varshney_data_hiveplot.md deleted file mode 100644 index 83e653dc5..000000000 --- a/docs/Pharynx_Varshney_data_hiveplot.md +++ /dev/null @@ -1,343 +0,0 @@ ---- -title: "Dataset: Varshney" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Varshney et al. 2011 -

Data extracted from NeuronConnectFormatted.xlsx for neuronal connectivity.   Reader: VarshneyDataReader

- -No connections present in this view - -### Neurons (herm) (279) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (23) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_White_A_data.md b/docs/Pharynx_White_A_data.md deleted file mode 100644 index af5dafc40..000000000 --- a/docs/Pharynx_White_A_data.md +++ /dev/null @@ -1,390 +0,0 @@ ---- -title: "Dataset: White_A" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_A.csv - adult (A) N2U series ("The N2U series was from an old hermaphrodite that gave good quality pictures" - White et al. 1986).   Reader: White_A

- -No connections present in this view - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_White_A_data_graph.md b/docs/Pharynx_White_A_data_graph.md deleted file mode 100644 index a76da640b..000000000 --- a/docs/Pharynx_White_A_data_graph.md +++ /dev/null @@ -1,390 +0,0 @@ ---- -title: "Dataset: White_A" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_A.csv - adult (A) N2U series ("The N2U series was from an old hermaphrodite that gave good quality pictures" - White et al. 1986).   Reader: White_A

- -No connections present in this view - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_White_A_data_hiveplot.md b/docs/Pharynx_White_A_data_hiveplot.md deleted file mode 100644 index cda992236..000000000 --- a/docs/Pharynx_White_A_data_hiveplot.md +++ /dev/null @@ -1,390 +0,0 @@ ---- -title: "Dataset: White_A" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_A.csv - adult (A) N2U series ("The N2U series was from an old hermaphrodite that gave good quality pictures" - White et al. 1986).   Reader: White_A

- -No connections present in this view - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_White_L4_data.md b/docs/Pharynx_White_L4_data.md deleted file mode 100644 index 749229456..000000000 --- a/docs/Pharynx_White_L4_data.md +++ /dev/null @@ -1,386 +0,0 @@ ---- -title: "Dataset: White_L4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_L4.csv - JSH series ("The JSH animal was a fourth stage (L4) larva" - White et al. 1986).   Reader: White_L4

- -No connections present in this view - -### Neurons (herm) (178) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (124) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (5) -
Full list of Other cells in this dataset -CEPshVL - | CEPshVR - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_White_L4_data_graph.md b/docs/Pharynx_White_L4_data_graph.md deleted file mode 100644 index a1117a2f0..000000000 --- a/docs/Pharynx_White_L4_data_graph.md +++ /dev/null @@ -1,386 +0,0 @@ ---- -title: "Dataset: White_L4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_L4.csv - JSH series ("The JSH animal was a fourth stage (L4) larva" - White et al. 1986).   Reader: White_L4

- -No connections present in this view - -### Neurons (herm) (178) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (124) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (5) -
Full list of Other cells in this dataset -CEPshVL - | CEPshVR - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_White_L4_data_hiveplot.md b/docs/Pharynx_White_L4_data_hiveplot.md deleted file mode 100644 index 218a7f74d..000000000 --- a/docs/Pharynx_White_L4_data_hiveplot.md +++ /dev/null @@ -1,386 +0,0 @@ ---- -title: "Dataset: White_L4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_L4.csv - JSH series ("The JSH animal was a fourth stage (L4) larva" - White et al. 1986).   Reader: White_L4

- -No connections present in this view - -### Neurons (herm) (178) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (124) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (5) -
Full list of Other cells in this dataset -CEPshVL - | CEPshVR - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_White_whole_data.md b/docs/Pharynx_White_whole_data.md deleted file mode 100644 index 14819d9c2..000000000 --- a/docs/Pharynx_White_whole_data.md +++ /dev/null @@ -1,371 +0,0 @@ ---- -title: "Dataset: White_whole" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_whole.csv - all connectivity from White et al. 1986).   Reader: White_whole

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/White_whole_Pharynx_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_whole_Pharynx_Electrical.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (3) -
Full list of Muscles in this dataset -BWM - | pm1 - | pm4_UNSPECIFIED - -
- -### Other cells (6) -
Full list of Other cells in this dataset -GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_White_whole_data_graph.md b/docs/Pharynx_White_whole_data_graph.md deleted file mode 100644 index 3c699fd1d..000000000 --- a/docs/Pharynx_White_whole_data_graph.md +++ /dev/null @@ -1,369 +0,0 @@ ---- -title: "Dataset: White_whole" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_whole.csv - all connectivity from White et al. 1986).   Reader: White_whole

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/White_whole_Pharynx_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/White_whole_Pharynx_Electrical_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (3) -
Full list of Muscles in this dataset -BWM - | pm1 - | pm4_UNSPECIFIED - -
- -### Other cells (6) -
Full list of Other cells in this dataset -GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_White_whole_data_hiveplot.md b/docs/Pharynx_White_whole_data_hiveplot.md deleted file mode 100644 index 8eaf4c09b..000000000 --- a/docs/Pharynx_White_whole_data_hiveplot.md +++ /dev/null @@ -1,371 +0,0 @@ ---- -title: "Dataset: White_whole" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_whole.csv - all connectivity from White et al. 1986).   Reader: White_whole

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/White_whole_Pharynx_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_whole_Pharynx_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (3) -
Full list of Muscles in this dataset -BWM - | pm1 - | pm4_UNSPECIFIED - -
- -### Other cells (6) -
Full list of Other cells in this dataset -GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_Witvliet1_data.md b/docs/Pharynx_Witvliet1_data.md deleted file mode 100644 index a2f619954..000000000 --- a/docs/Pharynx_Witvliet1_data.md +++ /dev/null @@ -1,375 +0,0 @@ ---- -title: "Dataset: Witvliet1" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_1.xlsx - Witvliet dataset 1 (L1 stage).   Reader: WitvlietDataReader1

- -No connections present in this view - -### Neurons (herm) (161) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (141) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVL - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (17) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_Witvliet1_data_graph.md b/docs/Pharynx_Witvliet1_data_graph.md deleted file mode 100644 index 72bf8efab..000000000 --- a/docs/Pharynx_Witvliet1_data_graph.md +++ /dev/null @@ -1,375 +0,0 @@ ---- -title: "Dataset: Witvliet1" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_1.xlsx - Witvliet dataset 1 (L1 stage).   Reader: WitvlietDataReader1

- -No connections present in this view - -### Neurons (herm) (161) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (141) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVL - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (17) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_Witvliet1_data_hiveplot.md b/docs/Pharynx_Witvliet1_data_hiveplot.md deleted file mode 100644 index d7f5b3f94..000000000 --- a/docs/Pharynx_Witvliet1_data_hiveplot.md +++ /dev/null @@ -1,375 +0,0 @@ ---- -title: "Dataset: Witvliet1" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_1.xlsx - Witvliet dataset 1 (L1 stage).   Reader: WitvlietDataReader1

- -No connections present in this view - -### Neurons (herm) (161) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (141) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVL - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (17) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_Witvliet2_data.md b/docs/Pharynx_Witvliet2_data.md deleted file mode 100644 index 7b8115089..000000000 --- a/docs/Pharynx_Witvliet2_data.md +++ /dev/null @@ -1,381 +0,0 @@ ---- -title: "Dataset: Witvliet2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_2.xlsx - Witvliet dataset 2 (L1 stage).   Reader: WitvlietDataReader2

- -No connections present in this view - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (21) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (11) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | exc_gl - -
diff --git a/docs/Pharynx_Witvliet2_data_graph.md b/docs/Pharynx_Witvliet2_data_graph.md deleted file mode 100644 index 39d25e6b3..000000000 --- a/docs/Pharynx_Witvliet2_data_graph.md +++ /dev/null @@ -1,381 +0,0 @@ ---- -title: "Dataset: Witvliet2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_2.xlsx - Witvliet dataset 2 (L1 stage).   Reader: WitvlietDataReader2

- -No connections present in this view - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (21) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (11) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | exc_gl - -
diff --git a/docs/Pharynx_Witvliet2_data_hiveplot.md b/docs/Pharynx_Witvliet2_data_hiveplot.md deleted file mode 100644 index 7326bfc51..000000000 --- a/docs/Pharynx_Witvliet2_data_hiveplot.md +++ /dev/null @@ -1,381 +0,0 @@ ---- -title: "Dataset: Witvliet2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_2.xlsx - Witvliet dataset 2 (L1 stage).   Reader: WitvlietDataReader2

- -No connections present in this view - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (21) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (11) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | exc_gl - -
diff --git a/docs/Pharynx_Witvliet3_data.md b/docs/Pharynx_Witvliet3_data.md deleted file mode 100644 index 3d460ff33..000000000 --- a/docs/Pharynx_Witvliet3_data.md +++ /dev/null @@ -1,385 +0,0 @@ ---- -title: "Dataset: Witvliet3" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_3.xlsx - Witvliet dataset 3 (L1 stage).   Reader: WitvlietDataReader3

- -No connections present in this view - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (27) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_Witvliet3_data_graph.md b/docs/Pharynx_Witvliet3_data_graph.md deleted file mode 100644 index 6a19496fe..000000000 --- a/docs/Pharynx_Witvliet3_data_graph.md +++ /dev/null @@ -1,385 +0,0 @@ ---- -title: "Dataset: Witvliet3" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_3.xlsx - Witvliet dataset 3 (L1 stage).   Reader: WitvlietDataReader3

- -No connections present in this view - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (27) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_Witvliet3_data_hiveplot.md b/docs/Pharynx_Witvliet3_data_hiveplot.md deleted file mode 100644 index 18d1e592a..000000000 --- a/docs/Pharynx_Witvliet3_data_hiveplot.md +++ /dev/null @@ -1,385 +0,0 @@ ---- -title: "Dataset: Witvliet3" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_3.xlsx - Witvliet dataset 3 (L1 stage).   Reader: WitvlietDataReader3

- -No connections present in this view - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (27) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_Witvliet4_data.md b/docs/Pharynx_Witvliet4_data.md deleted file mode 100644 index d4ebd9f0c..000000000 --- a/docs/Pharynx_Witvliet4_data.md +++ /dev/null @@ -1,385 +0,0 @@ ---- -title: "Dataset: Witvliet4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_4.xlsx - Witvliet dataset 4 (L1 stage).   Reader: WitvlietDataReader4

- -No connections present in this view - -### Neurons (herm) (168) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (134) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | SABD - | SABVL - | SABVR - | SDQL - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (26) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (10) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_Witvliet4_data_graph.md b/docs/Pharynx_Witvliet4_data_graph.md deleted file mode 100644 index 270fcdd4c..000000000 --- a/docs/Pharynx_Witvliet4_data_graph.md +++ /dev/null @@ -1,385 +0,0 @@ ---- -title: "Dataset: Witvliet4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_4.xlsx - Witvliet dataset 4 (L1 stage).   Reader: WitvlietDataReader4

- -No connections present in this view - -### Neurons (herm) (168) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (134) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | SABD - | SABVL - | SABVR - | SDQL - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (26) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (10) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_Witvliet4_data_hiveplot.md b/docs/Pharynx_Witvliet4_data_hiveplot.md deleted file mode 100644 index 50c5774f8..000000000 --- a/docs/Pharynx_Witvliet4_data_hiveplot.md +++ /dev/null @@ -1,385 +0,0 @@ ---- -title: "Dataset: Witvliet4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_4.xlsx - Witvliet dataset 4 (L1 stage).   Reader: WitvlietDataReader4

- -No connections present in this view - -### Neurons (herm) (168) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (134) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | SABD - | SABVL - | SABVR - | SDQL - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (26) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (10) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_Witvliet5_data.md b/docs/Pharynx_Witvliet5_data.md deleted file mode 100644 index 69cab80b9..000000000 --- a/docs/Pharynx_Witvliet5_data.md +++ /dev/null @@ -1,386 +0,0 @@ ---- -title: "Dataset: Witvliet5" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_5.xlsx - Witvliet dataset 5 (L2 stage).   Reader: WitvlietDataReader5

- -No connections present in this view - -### Neurons (herm) (174) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DB1 - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (128) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (28) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_Witvliet5_data_graph.md b/docs/Pharynx_Witvliet5_data_graph.md deleted file mode 100644 index e585711e9..000000000 --- a/docs/Pharynx_Witvliet5_data_graph.md +++ /dev/null @@ -1,386 +0,0 @@ ---- -title: "Dataset: Witvliet5" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_5.xlsx - Witvliet dataset 5 (L2 stage).   Reader: WitvlietDataReader5

- -No connections present in this view - -### Neurons (herm) (174) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DB1 - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (128) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (28) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_Witvliet5_data_hiveplot.md b/docs/Pharynx_Witvliet5_data_hiveplot.md deleted file mode 100644 index 901794adf..000000000 --- a/docs/Pharynx_Witvliet5_data_hiveplot.md +++ /dev/null @@ -1,386 +0,0 @@ ---- -title: "Dataset: Witvliet5" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_5.xlsx - Witvliet dataset 5 (L2 stage).   Reader: WitvlietDataReader5

- -No connections present in this view - -### Neurons (herm) (174) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DB1 - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (128) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (28) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_Witvliet6_data.md b/docs/Pharynx_Witvliet6_data.md deleted file mode 100644 index 2e904e78e..000000000 --- a/docs/Pharynx_Witvliet6_data.md +++ /dev/null @@ -1,390 +0,0 @@ ---- -title: "Dataset: Witvliet6" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_6.xlsx - Witvliet dataset 6 (L3 stage).   Reader: WitvlietDataReader6

- -No connections present in this view - -### Neurons (herm) (175) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (127) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_Witvliet6_data_graph.md b/docs/Pharynx_Witvliet6_data_graph.md deleted file mode 100644 index 5986895e0..000000000 --- a/docs/Pharynx_Witvliet6_data_graph.md +++ /dev/null @@ -1,390 +0,0 @@ ---- -title: "Dataset: Witvliet6" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_6.xlsx - Witvliet dataset 6 (L3 stage).   Reader: WitvlietDataReader6

- -No connections present in this view - -### Neurons (herm) (175) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (127) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_Witvliet6_data_hiveplot.md b/docs/Pharynx_Witvliet6_data_hiveplot.md deleted file mode 100644 index b51e998d8..000000000 --- a/docs/Pharynx_Witvliet6_data_hiveplot.md +++ /dev/null @@ -1,390 +0,0 @@ ---- -title: "Dataset: Witvliet6" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_6.xlsx - Witvliet dataset 6 (L3 stage).   Reader: WitvlietDataReader6

- -No connections present in this view - -### Neurons (herm) (175) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (127) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Pharynx_Witvliet7_data.md b/docs/Pharynx_Witvliet7_data.md deleted file mode 100644 index bbd12d1e9..000000000 --- a/docs/Pharynx_Witvliet7_data.md +++ /dev/null @@ -1,390 +0,0 @@ ---- -title: "Dataset: Witvliet7" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_7.xlsx - Witvliet dataset 7 (adult stage).   Reader: WitvlietDataReader7

- -No connections present in this view - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVR - -
diff --git a/docs/Pharynx_Witvliet7_data_graph.md b/docs/Pharynx_Witvliet7_data_graph.md deleted file mode 100644 index a51fd8b5c..000000000 --- a/docs/Pharynx_Witvliet7_data_graph.md +++ /dev/null @@ -1,390 +0,0 @@ ---- -title: "Dataset: Witvliet7" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_7.xlsx - Witvliet dataset 7 (adult stage).   Reader: WitvlietDataReader7

- -No connections present in this view - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVR - -
diff --git a/docs/Pharynx_Witvliet7_data_hiveplot.md b/docs/Pharynx_Witvliet7_data_hiveplot.md deleted file mode 100644 index 4afdeed43..000000000 --- a/docs/Pharynx_Witvliet7_data_hiveplot.md +++ /dev/null @@ -1,390 +0,0 @@ ---- -title: "Dataset: Witvliet7" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_7.xlsx - Witvliet dataset 7 (adult stage).   Reader: WitvlietDataReader7

- -No connections present in this view - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVR - -
diff --git a/docs/Pharynx_Witvliet8_data.md b/docs/Pharynx_Witvliet8_data.md deleted file mode 100644 index 1f306aa14..000000000 --- a/docs/Pharynx_Witvliet8_data.md +++ /dev/null @@ -1,388 +0,0 @@ ---- -title: "Dataset: Witvliet8" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_8.xlsx - Witvliet dataset 8 (adult stage).   Reader: WitvlietDataReader8

- -No connections present in this view - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (7) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRR - | GLRVL - -
diff --git a/docs/Pharynx_Witvliet8_data_graph.md b/docs/Pharynx_Witvliet8_data_graph.md deleted file mode 100644 index 7f475eb9f..000000000 --- a/docs/Pharynx_Witvliet8_data_graph.md +++ /dev/null @@ -1,388 +0,0 @@ ---- -title: "Dataset: Witvliet8" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_8.xlsx - Witvliet dataset 8 (adult stage).   Reader: WitvlietDataReader8

- -No connections present in this view - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (7) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRR - | GLRVL - -
diff --git a/docs/Pharynx_Witvliet8_data_hiveplot.md b/docs/Pharynx_Witvliet8_data_hiveplot.md deleted file mode 100644 index 69970e583..000000000 --- a/docs/Pharynx_Witvliet8_data_hiveplot.md +++ /dev/null @@ -1,388 +0,0 @@ ---- -title: "Dataset: Witvliet8" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_8.xlsx - Witvliet dataset 8 (adult stage).   Reader: WitvlietDataReader8

- -No connections present in this view - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (7) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRR - | GLRVL - -
diff --git a/docs/Pharynx_WormNeuroAtlas_data.md b/docs/Pharynx_WormNeuroAtlas_data.md deleted file mode 100644 index cba4f701a..000000000 --- a/docs/Pharynx_WormNeuroAtlas_data.md +++ /dev/null @@ -1,356 +0,0 @@ ---- -title: "Dataset: WormNeuroAtlas" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)** for neuronal connectivity.   Reader: WormNeuroAtlasReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Pharynx_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Pharynx_Electrical.json" } - ``` - - -### Neurons (herm) (298) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (4) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AWCL - | AWCR - | CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_WormNeuroAtlas_data_graph.md b/docs/Pharynx_WormNeuroAtlas_data_graph.md deleted file mode 100644 index 1f61ec5b6..000000000 --- a/docs/Pharynx_WormNeuroAtlas_data_graph.md +++ /dev/null @@ -1,354 +0,0 @@ ---- -title: "Dataset: WormNeuroAtlas" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)** for neuronal connectivity.   Reader: WormNeuroAtlasReader

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/WormNeuroAtlas_Pharynx_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/WormNeuroAtlas_Pharynx_Electrical_graph.json" } - ``` - - -### Neurons (herm) (298) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (4) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AWCL - | AWCR - | CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Pharynx_WormNeuroAtlas_data_hiveplot.md b/docs/Pharynx_WormNeuroAtlas_data_hiveplot.md deleted file mode 100644 index 881a58bce..000000000 --- a/docs/Pharynx_WormNeuroAtlas_data_hiveplot.md +++ /dev/null @@ -1,356 +0,0 @@ ---- -title: "Dataset: WormNeuroAtlas" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Only the 20 neurons of the pharynx (whether present or not in the connectome dataset) - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)** for neuronal connectivity.   Reader: WormNeuroAtlasReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Pharynx_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Pharynx_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (298) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (4) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AWCL - | AWCR - | CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Randi2023_data.md b/docs/Randi2023_data.md deleted file mode 100644 index a41364dc4..000000000 --- a/docs/Randi2023_data.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Randi2023" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data on functional connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasFuncReader

- -=== "Functional" - -
- ```plotly - { "file_path": "./assets/Randi2023_Raw_Functional.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | AQR - | AS1 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DB1 - | DB2 - | DD1 - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SIADL - | SIAVL - | SIAVR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VB1 - | VB2 - | VD1 - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AIAL - | AIAR - | ALML - | ALMR - | ALNL - | ALNR - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVM - | BDUL - | BDUR - | CANL - | CANR - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | HSNL - | HSNR - | I5 - | LUAL - | LUAR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RMHR - | SDQL - | SDQR - | SIADR - | SIBDL - | SIBDR - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB10 - | VB11 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Randi2023_data_graph.md b/docs/Randi2023_data_graph.md deleted file mode 100644 index 4489c7546..000000000 --- a/docs/Randi2023_data_graph.md +++ /dev/null @@ -1,348 +0,0 @@ ---- -title: "Dataset: Randi2023" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data on functional connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasFuncReader

- -=== "Functional" - - ```plotly - { "file_path": "./assets/Randi2023_Raw_Functional_graph.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | AQR - | AS1 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DB1 - | DB2 - | DD1 - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SIADL - | SIAVL - | SIAVR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VB1 - | VB2 - | VD1 - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AIAL - | AIAR - | ALML - | ALMR - | ALNL - | ALNR - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVM - | BDUL - | BDUR - | CANL - | CANR - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | HSNL - | HSNR - | I5 - | LUAL - | LUAR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RMHR - | SDQL - | SDQR - | SIADR - | SIBDL - | SIBDR - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB10 - | VB11 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Randi2023_data_hiveplot.md b/docs/Randi2023_data_hiveplot.md deleted file mode 100644 index b1c49ccbf..000000000 --- a/docs/Randi2023_data_hiveplot.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Randi2023" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data on functional connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasFuncReader

- -=== "Functional" - -
- ```plotly - { "file_path": "./assets/Randi2023_Raw_Functional_hiveplot.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | AQR - | AS1 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DB1 - | DB2 - | DD1 - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SIADL - | SIAVL - | SIAVR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VB1 - | VB2 - | VD1 - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AIAL - | AIAR - | ALML - | ALMR - | ALNL - | ALNR - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVM - | BDUL - | BDUR - | CANL - | CANR - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | HSNL - | HSNR - | I5 - | LUAL - | LUAR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RMHR - | SDQL - | SDQR - | SIADR - | SIBDL - | SIBDR - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB10 - | VB11 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/RipollSanchezLongRange_data.md b/docs/RipollSanchezLongRange_data.md deleted file mode 100644 index 471aeafec..000000000 --- a/docs/RipollSanchezLongRange_data.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezLongRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_long_range_model.csv for long range model of neuropedtidergic connectome.   Reader: RipollSanchezLongRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezLongRange_Raw_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/RipollSanchezLongRange_data_graph.md b/docs/RipollSanchezLongRange_data_graph.md deleted file mode 100644 index d3208ff63..000000000 --- a/docs/RipollSanchezLongRange_data_graph.md +++ /dev/null @@ -1,345 +0,0 @@ ---- -title: "Dataset: RipollSanchezLongRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_long_range_model.csv for long range model of neuropedtidergic connectome.   Reader: RipollSanchezLongRangeReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/RipollSanchezLongRange_Raw_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/RipollSanchezLongRange_data_hiveplot.md b/docs/RipollSanchezLongRange_data_hiveplot.md deleted file mode 100644 index 270a11d0f..000000000 --- a/docs/RipollSanchezLongRange_data_hiveplot.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezLongRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_long_range_model.csv for long range model of neuropedtidergic connectome.   Reader: RipollSanchezLongRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezLongRange_Raw_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/RipollSanchezMidRange_data.md b/docs/RipollSanchezMidRange_data.md deleted file mode 100644 index 9818f1ec4..000000000 --- a/docs/RipollSanchezMidRange_data.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezMidRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_mid_range_model.csv for mid range model of neuropedtidergic connectome.   Reader: RipollSanchezMidRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezMidRange_Raw_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/RipollSanchezMidRange_data_graph.md b/docs/RipollSanchezMidRange_data_graph.md deleted file mode 100644 index 80d6c5683..000000000 --- a/docs/RipollSanchezMidRange_data_graph.md +++ /dev/null @@ -1,345 +0,0 @@ ---- -title: "Dataset: RipollSanchezMidRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_mid_range_model.csv for mid range model of neuropedtidergic connectome.   Reader: RipollSanchezMidRangeReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/RipollSanchezMidRange_Raw_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/RipollSanchezMidRange_data_hiveplot.md b/docs/RipollSanchezMidRange_data_hiveplot.md deleted file mode 100644 index 6330a8482..000000000 --- a/docs/RipollSanchezMidRange_data_hiveplot.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezMidRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_mid_range_model.csv for mid range model of neuropedtidergic connectome.   Reader: RipollSanchezMidRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezMidRange_Raw_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/RipollSanchezShortRange_data.md b/docs/RipollSanchezShortRange_data.md deleted file mode 100644 index a79c40491..000000000 --- a/docs/RipollSanchezShortRange_data.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezShortRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_short_range_model.csv for short range model of neuropedtidergic connectome.   Reader: RipollSanchezShortRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezShortRange_Raw_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/RipollSanchezShortRange_data_graph.md b/docs/RipollSanchezShortRange_data_graph.md deleted file mode 100644 index 020a5dec7..000000000 --- a/docs/RipollSanchezShortRange_data_graph.md +++ /dev/null @@ -1,345 +0,0 @@ ---- -title: "Dataset: RipollSanchezShortRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_short_range_model.csv for short range model of neuropedtidergic connectome.   Reader: RipollSanchezShortRangeReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/RipollSanchezShortRange_Raw_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/RipollSanchezShortRange_data_hiveplot.md b/docs/RipollSanchezShortRange_data_hiveplot.md deleted file mode 100644 index 0439c593c..000000000 --- a/docs/RipollSanchezShortRange_data_hiveplot.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezShortRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_short_range_model.csv for short range model of neuropedtidergic connectome.   Reader: RipollSanchezShortRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezShortRange_Raw_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/SSData_data.md b/docs/SSData_data.md deleted file mode 100644 index c99f72661..000000000 --- a/docs/SSData_data.md +++ /dev/null @@ -1,456 +0,0 @@ ---- -title: "Dataset: SSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from CElegansNeuronTables.xls for neuronal connectivity. Note: legacy dataset (based on White_whole) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: SpreadsheetDataReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/SSData_Raw_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/SSData_Raw_Electrical.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (97) -
Full list of Muscles in this dataset -MANAL - | MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | MVULVA - -
- -### Other cells (0) diff --git a/docs/SSData_data_graph.md b/docs/SSData_data_graph.md deleted file mode 100644 index 8f0159062..000000000 --- a/docs/SSData_data_graph.md +++ /dev/null @@ -1,454 +0,0 @@ ---- -title: "Dataset: SSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from CElegansNeuronTables.xls for neuronal connectivity. Note: legacy dataset (based on White_whole) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: SpreadsheetDataReader

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/SSData_Raw_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/SSData_Raw_Electrical_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (97) -
Full list of Muscles in this dataset -MANAL - | MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | MVULVA - -
- -### Other cells (0) diff --git a/docs/SSData_data_hiveplot.md b/docs/SSData_data_hiveplot.md deleted file mode 100644 index 41088c250..000000000 --- a/docs/SSData_data_hiveplot.md +++ /dev/null @@ -1,456 +0,0 @@ ---- -title: "Dataset: SSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from CElegansNeuronTables.xls for neuronal connectivity. Note: legacy dataset (based on White_whole) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: SpreadsheetDataReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/SSData_Raw_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/SSData_Raw_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (97) -
Full list of Muscles in this dataset -MANAL - | MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | MVULVA - -
- -### Other cells (0) diff --git a/docs/Social_Bentley2016_MA_data.md b/docs/Social_Bentley2016_MA_data.md deleted file mode 100644 index 3009e159e..000000000 --- a/docs/Social_Bentley2016_MA_data.md +++ /dev/null @@ -1,343 +0,0 @@ ---- -title: "Dataset: Bentley2016_MA" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on monoaminergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasMAReader

- -No connections present in this view - -### Neurons (herm) (233) -
Full list of Neurons (hermaphrodite only) in this dataset -ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AIYL - | AIYR - | AIZL - | AIZR - | ALML - | ALMR - | ALNL - | ALNR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASKL - | ASKR - | AUAL - | AUAR - | AVBL - | AVBR - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVL - | AVM - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVQL - | PVQR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIML - | RIMR - | RIS - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (69) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | AINL - | AINR - | ALA - | AQR - | ASJL - | ASJR - | AVAL - | AVAR - | AVDL - | AVDR - | AVEL - | AVER - | AVG - | AVKL - | AVKR - | AWAL - | AWAR - | AWCL - | AWCR - | CANL - | CANR - | DVB - | I5 - | MI - | PDB - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVR - | PVWL - | PVWR - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIPL - | RIPR - | RIR - | RIVL - | RIVR - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_Bentley2016_MA_data_graph.md b/docs/Social_Bentley2016_MA_data_graph.md deleted file mode 100644 index b40f42617..000000000 --- a/docs/Social_Bentley2016_MA_data_graph.md +++ /dev/null @@ -1,343 +0,0 @@ ---- -title: "Dataset: Bentley2016_MA" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on monoaminergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasMAReader

- -No connections present in this view - -### Neurons (herm) (233) -
Full list of Neurons (hermaphrodite only) in this dataset -ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AIYL - | AIYR - | AIZL - | AIZR - | ALML - | ALMR - | ALNL - | ALNR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASKL - | ASKR - | AUAL - | AUAR - | AVBL - | AVBR - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVL - | AVM - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVQL - | PVQR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIML - | RIMR - | RIS - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (69) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | AINL - | AINR - | ALA - | AQR - | ASJL - | ASJR - | AVAL - | AVAR - | AVDL - | AVDR - | AVEL - | AVER - | AVG - | AVKL - | AVKR - | AWAL - | AWAR - | AWCL - | AWCR - | CANL - | CANR - | DVB - | I5 - | MI - | PDB - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVR - | PVWL - | PVWR - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIPL - | RIPR - | RIR - | RIVL - | RIVR - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_Bentley2016_MA_data_hiveplot.md b/docs/Social_Bentley2016_MA_data_hiveplot.md deleted file mode 100644 index 01c4e3162..000000000 --- a/docs/Social_Bentley2016_MA_data_hiveplot.md +++ /dev/null @@ -1,343 +0,0 @@ ---- -title: "Dataset: Bentley2016_MA" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on monoaminergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasMAReader

- -No connections present in this view - -### Neurons (herm) (233) -
Full list of Neurons (hermaphrodite only) in this dataset -ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AIYL - | AIYR - | AIZL - | AIZR - | ALML - | ALMR - | ALNL - | ALNR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASKL - | ASKR - | AUAL - | AUAR - | AVBL - | AVBR - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVL - | AVM - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVQL - | PVQR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIML - | RIMR - | RIS - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (69) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | AINL - | AINR - | ALA - | AQR - | ASJL - | ASJR - | AVAL - | AVAR - | AVDL - | AVDR - | AVEL - | AVER - | AVG - | AVKL - | AVKR - | AWAL - | AWAR - | AWCL - | AWCR - | CANL - | CANR - | DVB - | I5 - | MI - | PDB - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVR - | PVWL - | PVWR - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIPL - | RIPR - | RIR - | RIVL - | RIVR - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_Bentley2016_PEP_data.md b/docs/Social_Bentley2016_PEP_data.md deleted file mode 100644 index ef473ef77..000000000 --- a/docs/Social_Bentley2016_PEP_data.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Bentley2016_PEP" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on peptidergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasPepReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/Bentley2016_PEP_Social_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_Bentley2016_PEP_data_graph.md b/docs/Social_Bentley2016_PEP_data_graph.md deleted file mode 100644 index f1e648b54..000000000 --- a/docs/Social_Bentley2016_PEP_data_graph.md +++ /dev/null @@ -1,348 +0,0 @@ ---- -title: "Dataset: Bentley2016_PEP" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on peptidergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasPepReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/Bentley2016_PEP_Social_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_Bentley2016_PEP_data_hiveplot.md b/docs/Social_Bentley2016_PEP_data_hiveplot.md deleted file mode 100644 index 75782b6a8..000000000 --- a/docs/Social_Bentley2016_PEP_data_hiveplot.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Bentley2016_PEP" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Bentley et al. 2016 -

Data on peptidergic connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasPepReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/Bentley2016_PEP_Social_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_Cook2019Herm_data.md b/docs/Social_Cook2019Herm_data.md deleted file mode 100644 index 1bd4634eb..000000000 --- a/docs/Social_Cook2019Herm_data.md +++ /dev/null @@ -1,530 +0,0 @@ ---- -title: "Dataset: Cook2019Herm" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of hermaphrodite.   Reader: Cook2019HermReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Cook2019Herm_Social_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2019Herm_Social_Electrical.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (135) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | um1AL - | um1AR - | um1PL - | um1PR - | um2AL - | um2AR - | um2PL - | um2PR - | vm1AL - | vm1AR - | vm1PL - | vm1PR - | vm2AL - | vm2AR - | vm2PL - | vm2PR - -
- -### Other cells (36) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | hmc - | hyp - | int - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Social_Cook2019Herm_data_graph.md b/docs/Social_Cook2019Herm_data_graph.md deleted file mode 100644 index 8f12a6944..000000000 --- a/docs/Social_Cook2019Herm_data_graph.md +++ /dev/null @@ -1,528 +0,0 @@ ---- -title: "Dataset: Cook2019Herm" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of hermaphrodite.   Reader: Cook2019HermReader

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Cook2019Herm_Social_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Cook2019Herm_Social_Electrical_graph.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (135) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | um1AL - | um1AR - | um1PL - | um1PR - | um2AL - | um2AR - | um2PL - | um2PR - | vm1AL - | vm1AR - | vm1PL - | vm1PR - | vm2AL - | vm2AR - | vm2PL - | vm2PR - -
- -### Other cells (36) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | hmc - | hyp - | int - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Social_Cook2019Herm_data_hiveplot.md b/docs/Social_Cook2019Herm_data_hiveplot.md deleted file mode 100644 index f2805e4a6..000000000 --- a/docs/Social_Cook2019Herm_data_hiveplot.md +++ /dev/null @@ -1,530 +0,0 @@ ---- -title: "Dataset: Cook2019Herm" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of hermaphrodite.   Reader: Cook2019HermReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Cook2019Herm_Social_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2019Herm_Social_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (135) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | um1AL - | um1AR - | um1PL - | um1PR - | um2AL - | um2AR - | um2PL - | um2PR - | vm1AL - | vm1AR - | vm1PL - | vm1PR - | vm2AL - | vm2AR - | vm2PL - | vm2PR - -
- -### Other cells (36) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | hmc - | hyp - | int - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Social_Cook2019Male_data.md b/docs/Social_Cook2019Male_data.md deleted file mode 100644 index ed8df88dc..000000000 --- a/docs/Social_Cook2019Male_data.md +++ /dev/null @@ -1,653 +0,0 @@ ---- -title: "Dataset: Cook2019Male" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of male.   Reader: Cook2019MaleReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Cook2019Male_Social_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2019Male_Social_Electrical.json" } - ``` - - -### Neurons (herm) (292) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (10) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAR - | BAGR - | HSNL - | HSNR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (156) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | ailL - | ailR - | aobL - | aobR - | cdlL - | cdlR - | dglL1 - | dglL2 - | dglL3 - | dglL4 - | dglL5 - | dglL6 - | dglL7 - | dglR1 - | dglR2 - | dglR3 - | dglR4 - | dglR5 - | dglR6 - | dglR7 - | dglR8 - | dspL - | dspR - | dsrL - | dsrR - | gecL - | gecR - | grtL - | grtR - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | pobL - | pobR - | polL - | polR - | vspL - | vspR - | vsrL - | vsrR - -
- -### Other cells (135) -
Full list of Other cells in this dataset -CA02 - | CA03 - | CA04 - | CA05 - | CA06 - | CA07 - | CA08 - | CA09 - | CEMDL - | CEMDR - | CEMVL - | CEMVR - | CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | CP01 - | CP02 - | CP03 - | CP04 - | CP05 - | CP06 - | CP07 - | CP08 - | CP09 - | DVE - | DVF - | DX1 - | DX2 - | DX3 - | EF1 - | EF2 - | EF3 - | GLRDR - | GLRVL - | GLRVR - | HOA - | HOB - | MCML - | MCMR - | PCAL - | PCAR - | PCBL - | PCBR - | PCCL - | PCCR - | PDC - | PGA - | PHDL - | PHDR - | PVV - | PVX - | PVY - | PVZ - | R1AL - | R1AR - | R1BL - | R1BR - | R1shL - | R1shR - | R2AL - | R2AR - | R2BL - | R2BR - | R2shL - | R2shR - | R3AL - | R3AR - | R3BL - | R3BR - | R3shL - | R3shR - | R4AL - | R4AR - | R4BL - | R4BR - | R4shL - | R5AL - | R5AR - | R5BL - | R5BR - | R5shL - | R5shR - | R6AL - | R6AR - | R6BL - | R6BR - | R7AL - | R7AR - | R7BL - | R7BR - | R7shL - | R7shR - | R8AL - | R8AR - | R8BL - | R8BR - | R9AL - | R9AR - | R9BL - | R9BR - | R9shL - | SPCL - | SPCR - | SPDL - | SPDR - | SPVL - | SPVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | gonad - | hmc - | hyp - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - | proctodeum - -
diff --git a/docs/Social_Cook2019Male_data_graph.md b/docs/Social_Cook2019Male_data_graph.md deleted file mode 100644 index 8e63a1844..000000000 --- a/docs/Social_Cook2019Male_data_graph.md +++ /dev/null @@ -1,651 +0,0 @@ ---- -title: "Dataset: Cook2019Male" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of male.   Reader: Cook2019MaleReader

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Cook2019Male_Social_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Cook2019Male_Social_Electrical_graph.json" } - ``` - - -### Neurons (herm) (292) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (10) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAR - | BAGR - | HSNL - | HSNR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (156) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | ailL - | ailR - | aobL - | aobR - | cdlL - | cdlR - | dglL1 - | dglL2 - | dglL3 - | dglL4 - | dglL5 - | dglL6 - | dglL7 - | dglR1 - | dglR2 - | dglR3 - | dglR4 - | dglR5 - | dglR6 - | dglR7 - | dglR8 - | dspL - | dspR - | dsrL - | dsrR - | gecL - | gecR - | grtL - | grtR - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | pobL - | pobR - | polL - | polR - | vspL - | vspR - | vsrL - | vsrR - -
- -### Other cells (135) -
Full list of Other cells in this dataset -CA02 - | CA03 - | CA04 - | CA05 - | CA06 - | CA07 - | CA08 - | CA09 - | CEMDL - | CEMDR - | CEMVL - | CEMVR - | CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | CP01 - | CP02 - | CP03 - | CP04 - | CP05 - | CP06 - | CP07 - | CP08 - | CP09 - | DVE - | DVF - | DX1 - | DX2 - | DX3 - | EF1 - | EF2 - | EF3 - | GLRDR - | GLRVL - | GLRVR - | HOA - | HOB - | MCML - | MCMR - | PCAL - | PCAR - | PCBL - | PCBR - | PCCL - | PCCR - | PDC - | PGA - | PHDL - | PHDR - | PVV - | PVX - | PVY - | PVZ - | R1AL - | R1AR - | R1BL - | R1BR - | R1shL - | R1shR - | R2AL - | R2AR - | R2BL - | R2BR - | R2shL - | R2shR - | R3AL - | R3AR - | R3BL - | R3BR - | R3shL - | R3shR - | R4AL - | R4AR - | R4BL - | R4BR - | R4shL - | R5AL - | R5AR - | R5BL - | R5BR - | R5shL - | R5shR - | R6AL - | R6AR - | R6BL - | R6BR - | R7AL - | R7AR - | R7BL - | R7BR - | R7shL - | R7shR - | R8AL - | R8AR - | R8BL - | R8BR - | R9AL - | R9AR - | R9BL - | R9BR - | R9shL - | SPCL - | SPCR - | SPDL - | SPDR - | SPVL - | SPVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | gonad - | hmc - | hyp - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - | proctodeum - -
diff --git a/docs/Social_Cook2019Male_data_hiveplot.md b/docs/Social_Cook2019Male_data_hiveplot.md deleted file mode 100644 index 629bd5abd..000000000 --- a/docs/Social_Cook2019Male_data_hiveplot.md +++ /dev/null @@ -1,653 +0,0 @@ ---- -title: "Dataset: Cook2019Male" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2019 -

Data extracted from SI 5 Connectome adjacency matrices.xlsx for neuronal connectivity of male.   Reader: Cook2019MaleReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Cook2019Male_Social_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Cook2019Male_Social_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (292) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (10) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAR - | BAGR - | HSNL - | HSNR - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - -
- -### Muscles (156) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | ailL - | ailR - | aobL - | aobR - | cdlL - | cdlR - | dglL1 - | dglL2 - | dglL3 - | dglL4 - | dglL5 - | dglL6 - | dglL7 - | dglR1 - | dglR2 - | dglR3 - | dglR4 - | dglR5 - | dglR6 - | dglR7 - | dglR8 - | dspL - | dspR - | dsrL - | dsrR - | gecL - | gecR - | grtL - | grtR - | mu_anal - | mu_intL - | mu_intR - | mu_sph - | pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - | pobL - | pobR - | polL - | polR - | vspL - | vspR - | vsrL - | vsrR - -
- -### Other cells (135) -
Full list of Other cells in this dataset -CA02 - | CA03 - | CA04 - | CA05 - | CA06 - | CA07 - | CA08 - | CA09 - | CEMDL - | CEMDR - | CEMVL - | CEMVR - | CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | CP01 - | CP02 - | CP03 - | CP04 - | CP05 - | CP06 - | CP07 - | CP08 - | CP09 - | DVE - | DVF - | DX1 - | DX2 - | DX3 - | EF1 - | EF2 - | EF3 - | GLRDR - | GLRVL - | GLRVR - | HOA - | HOB - | MCML - | MCMR - | PCAL - | PCAR - | PCBL - | PCBR - | PCCL - | PCCR - | PDC - | PGA - | PHDL - | PHDR - | PVV - | PVX - | PVY - | PVZ - | R1AL - | R1AR - | R1BL - | R1BR - | R1shL - | R1shR - | R2AL - | R2AR - | R2BL - | R2BR - | R2shL - | R2shR - | R3AL - | R3AR - | R3BL - | R3BR - | R3shL - | R3shR - | R4AL - | R4AR - | R4BL - | R4BR - | R4shL - | R5AL - | R5AR - | R5BL - | R5BR - | R5shL - | R5shR - | R6AL - | R6AR - | R6BL - | R6BR - | R7AL - | R7AR - | R7BL - | R7BR - | R7shL - | R7shR - | R8AL - | R8AR - | R8BL - | R8BR - | R9AL - | R9AR - | R9BL - | R9BR - | R9shL - | SPCL - | SPCR - | SPDL - | SPDR - | SPVL - | SPVR - | bm - | e2D - | e2VL - | e2VR - | e3D - | e3VL - | e3VR - | exc_cell - | exc_gl - | g1AL - | g1AR - | g1p - | g2L - | g2R - | gonad - | hmc - | hyp - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - | proctodeum - -
diff --git a/docs/Social_Cook2020_data.md b/docs/Social_Cook2020_data.md deleted file mode 100644 index 767dec625..000000000 --- a/docs/Social_Cook2020_data.md +++ /dev/null @@ -1,390 +0,0 @@ ---- -title: "Dataset: Cook2020" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2020 -

Data extracted from cne24932-sup-0004-supinfo4.csv and cne24932-sup-0005-supinfo5.csv for connectivity of pharyngeal neurons, muscles and other cells.   Reader: Cook2020DataReader

- -No connections present in this view - -### Neurons (herm) (22) -
Full list of Neurons (hermaphrodite only) in this dataset -I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | RIPL - | RIPR - -
- -### Missing neurons (280) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (20) -
Full list of Muscles in this dataset -pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - -
- -### Other cells (21) -
Full list of Other cells in this dataset -bm - | e2DL - | e2DR - | e2V - | e3D - | e3VL - | e3VR - | g1AL - | g1AR - | g1P - | g2L - | g2R - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Social_Cook2020_data_graph.md b/docs/Social_Cook2020_data_graph.md deleted file mode 100644 index fab4670db..000000000 --- a/docs/Social_Cook2020_data_graph.md +++ /dev/null @@ -1,390 +0,0 @@ ---- -title: "Dataset: Cook2020" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2020 -

Data extracted from cne24932-sup-0004-supinfo4.csv and cne24932-sup-0005-supinfo5.csv for connectivity of pharyngeal neurons, muscles and other cells.   Reader: Cook2020DataReader

- -No connections present in this view - -### Neurons (herm) (22) -
Full list of Neurons (hermaphrodite only) in this dataset -I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | RIPL - | RIPR - -
- -### Missing neurons (280) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (20) -
Full list of Muscles in this dataset -pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - -
- -### Other cells (21) -
Full list of Other cells in this dataset -bm - | e2DL - | e2DR - | e2V - | e3D - | e3VL - | e3VR - | g1AL - | g1AR - | g1P - | g2L - | g2R - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Social_Cook2020_data_hiveplot.md b/docs/Social_Cook2020_data_hiveplot.md deleted file mode 100644 index 57793fdf0..000000000 --- a/docs/Social_Cook2020_data_hiveplot.md +++ /dev/null @@ -1,390 +0,0 @@ ---- -title: "Dataset: Cook2020" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Cook et al. 2020 -

Data extracted from cne24932-sup-0004-supinfo4.csv and cne24932-sup-0005-supinfo5.csv for connectivity of pharyngeal neurons, muscles and other cells.   Reader: Cook2020DataReader

- -No connections present in this view - -### Neurons (herm) (22) -
Full list of Neurons (hermaphrodite only) in this dataset -I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | RIPL - | RIPR - -
- -### Missing neurons (280) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (20) -
Full list of Muscles in this dataset -pm1 - | pm2D - | pm2VL - | pm2VR - | pm3D - | pm3VL - | pm3VR - | pm4D - | pm4VL - | pm4VR - | pm5D - | pm5VL - | pm5VR - | pm6D - | pm6VL - | pm6VR - | pm7D - | pm7VL - | pm7VR - | pm8 - -
- -### Other cells (21) -
Full list of Other cells in this dataset -bm - | e2DL - | e2DR - | e2V - | e3D - | e3VL - | e3VR - | g1AL - | g1AR - | g1P - | g2L - | g2R - | mc1DL - | mc1DR - | mc1V - | mc2DL - | mc2DR - | mc2V - | mc3DL - | mc3DR - | mc3V - -
diff --git a/docs/Social_Randi2023_data.md b/docs/Social_Randi2023_data.md deleted file mode 100644 index 3e1143975..000000000 --- a/docs/Social_Randi2023_data.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Randi2023" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data on functional connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasFuncReader

- -=== "Functional" - -
- ```plotly - { "file_path": "./assets/Randi2023_Social_Functional.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | AQR - | AS1 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DB1 - | DB2 - | DD1 - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SIADL - | SIAVL - | SIAVR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VB1 - | VB2 - | VD1 - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AIAL - | AIAR - | ALML - | ALMR - | ALNL - | ALNR - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVM - | BDUL - | BDUR - | CANL - | CANR - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | HSNL - | HSNR - | I5 - | LUAL - | LUAR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RMHR - | SDQL - | SDQR - | SIADR - | SIBDL - | SIBDR - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB10 - | VB11 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_Randi2023_data_graph.md b/docs/Social_Randi2023_data_graph.md deleted file mode 100644 index db953a0d2..000000000 --- a/docs/Social_Randi2023_data_graph.md +++ /dev/null @@ -1,348 +0,0 @@ ---- -title: "Dataset: Randi2023" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data on functional connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasFuncReader

- -=== "Functional" - - ```plotly - { "file_path": "./assets/Randi2023_Social_Functional_graph.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | AQR - | AS1 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DB1 - | DB2 - | DD1 - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SIADL - | SIAVL - | SIAVR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VB1 - | VB2 - | VD1 - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AIAL - | AIAR - | ALML - | ALMR - | ALNL - | ALNR - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVM - | BDUL - | BDUR - | CANL - | CANR - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | HSNL - | HSNR - | I5 - | LUAL - | LUAR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RMHR - | SDQL - | SDQR - | SIADR - | SIBDL - | SIBDR - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB10 - | VB11 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_Randi2023_data_hiveplot.md b/docs/Social_Randi2023_data_hiveplot.md deleted file mode 100644 index 49399b2ce..000000000 --- a/docs/Social_Randi2023_data_hiveplot.md +++ /dev/null @@ -1,349 +0,0 @@ ---- -title: "Dataset: Randi2023" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data on functional connectivity from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)**.   Reader: WormNeuroAtlasFuncReader

- -=== "Functional" - -
- ```plotly - { "file_path": "./assets/Randi2023_Social_Functional_hiveplot.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | AQR - | AS1 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DB1 - | DB2 - | DD1 - | FLPL - | FLPR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SIADL - | SIAVL - | SIAVR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VB1 - | VB2 - | VD1 - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AIAL - | AIAR - | ALML - | ALMR - | ALNL - | ALNR - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVM - | BDUL - | BDUR - | CANL - | CANR - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | HSNL - | HSNR - | I5 - | LUAL - | LUAR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RMHR - | SDQL - | SDQR - | SIADR - | SIBDL - | SIBDR - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB10 - | VB11 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_RipollSanchezLongRange_data.md b/docs/Social_RipollSanchezLongRange_data.md deleted file mode 100644 index 1e6288644..000000000 --- a/docs/Social_RipollSanchezLongRange_data.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezLongRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_long_range_model.csv for long range model of neuropedtidergic connectome.   Reader: RipollSanchezLongRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezLongRange_Social_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_RipollSanchezLongRange_data_graph.md b/docs/Social_RipollSanchezLongRange_data_graph.md deleted file mode 100644 index f067b8fd7..000000000 --- a/docs/Social_RipollSanchezLongRange_data_graph.md +++ /dev/null @@ -1,345 +0,0 @@ ---- -title: "Dataset: RipollSanchezLongRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_long_range_model.csv for long range model of neuropedtidergic connectome.   Reader: RipollSanchezLongRangeReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/RipollSanchezLongRange_Social_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_RipollSanchezLongRange_data_hiveplot.md b/docs/Social_RipollSanchezLongRange_data_hiveplot.md deleted file mode 100644 index 3b6ac9d1f..000000000 --- a/docs/Social_RipollSanchezLongRange_data_hiveplot.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezLongRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_long_range_model.csv for long range model of neuropedtidergic connectome.   Reader: RipollSanchezLongRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezLongRange_Social_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_RipollSanchezMidRange_data.md b/docs/Social_RipollSanchezMidRange_data.md deleted file mode 100644 index 5e9c9a87c..000000000 --- a/docs/Social_RipollSanchezMidRange_data.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezMidRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_mid_range_model.csv for mid range model of neuropedtidergic connectome.   Reader: RipollSanchezMidRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezMidRange_Social_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_RipollSanchezMidRange_data_graph.md b/docs/Social_RipollSanchezMidRange_data_graph.md deleted file mode 100644 index 3624cdf07..000000000 --- a/docs/Social_RipollSanchezMidRange_data_graph.md +++ /dev/null @@ -1,345 +0,0 @@ ---- -title: "Dataset: RipollSanchezMidRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_mid_range_model.csv for mid range model of neuropedtidergic connectome.   Reader: RipollSanchezMidRangeReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/RipollSanchezMidRange_Social_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_RipollSanchezMidRange_data_hiveplot.md b/docs/Social_RipollSanchezMidRange_data_hiveplot.md deleted file mode 100644 index eeec22242..000000000 --- a/docs/Social_RipollSanchezMidRange_data_hiveplot.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezMidRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_mid_range_model.csv for mid range model of neuropedtidergic connectome.   Reader: RipollSanchezMidRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezMidRange_Social_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_RipollSanchezShortRange_data.md b/docs/Social_RipollSanchezShortRange_data.md deleted file mode 100644 index fb85cb0bb..000000000 --- a/docs/Social_RipollSanchezShortRange_data.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezShortRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_short_range_model.csv for short range model of neuropedtidergic connectome.   Reader: RipollSanchezShortRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezShortRange_Social_Extrasynaptic.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_RipollSanchezShortRange_data_graph.md b/docs/Social_RipollSanchezShortRange_data_graph.md deleted file mode 100644 index c5db995c5..000000000 --- a/docs/Social_RipollSanchezShortRange_data_graph.md +++ /dev/null @@ -1,345 +0,0 @@ ---- -title: "Dataset: RipollSanchezShortRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_short_range_model.csv for short range model of neuropedtidergic connectome.   Reader: RipollSanchezShortRangeReader

- -=== "Extrasynaptic" - - ```plotly - { "file_path": "./assets/RipollSanchezShortRange_Social_Extrasynaptic_graph.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_RipollSanchezShortRange_data_hiveplot.md b/docs/Social_RipollSanchezShortRange_data_hiveplot.md deleted file mode 100644 index f0b444cde..000000000 --- a/docs/Social_RipollSanchezShortRange_data_hiveplot.md +++ /dev/null @@ -1,346 +0,0 @@ ---- -title: "Dataset: RipollSanchezShortRange" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from RipollSanchez et al. 2023 -

Data extracted from 01022024_neuropeptide_connectome_short_range_model.csv for short range model of neuropedtidergic connectome.   Reader: RipollSanchezShortRangeReader

- -=== "Extrasynaptic" - -
- ```plotly - { "file_path": "./assets/RipollSanchezShortRange_Social_Extrasynaptic_hiveplot.json" } - ``` - - -### Neurons (herm) (302) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANL - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (0) - -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_SSData_data.md b/docs/Social_SSData_data.md deleted file mode 100644 index 8722fc36a..000000000 --- a/docs/Social_SSData_data.md +++ /dev/null @@ -1,456 +0,0 @@ ---- -title: "Dataset: SSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from CElegansNeuronTables.xls for neuronal connectivity. Note: legacy dataset (based on White_whole) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: SpreadsheetDataReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/SSData_Social_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/SSData_Social_Electrical.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (97) -
Full list of Muscles in this dataset -MANAL - | MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | MVULVA - -
- -### Other cells (0) diff --git a/docs/Social_SSData_data_graph.md b/docs/Social_SSData_data_graph.md deleted file mode 100644 index 2ce2b79d9..000000000 --- a/docs/Social_SSData_data_graph.md +++ /dev/null @@ -1,454 +0,0 @@ ---- -title: "Dataset: SSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from CElegansNeuronTables.xls for neuronal connectivity. Note: legacy dataset (based on White_whole) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: SpreadsheetDataReader

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/SSData_Social_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/SSData_Social_Electrical_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (97) -
Full list of Muscles in this dataset -MANAL - | MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | MVULVA - -
- -### Other cells (0) diff --git a/docs/Social_SSData_data_hiveplot.md b/docs/Social_SSData_data_hiveplot.md deleted file mode 100644 index 953c8294d..000000000 --- a/docs/Social_SSData_data_hiveplot.md +++ /dev/null @@ -1,456 +0,0 @@ ---- -title: "Dataset: SSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from CElegansNeuronTables.xls for neuronal connectivity. Note: legacy dataset (based on White_whole) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: SpreadsheetDataReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/SSData_Social_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/SSData_Social_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (97) -
Full list of Muscles in this dataset -MANAL - | MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - | MVULVA - -
- -### Other cells (0) diff --git a/docs/Social_UpdSSData2_data.md b/docs/Social_UpdSSData2_data.md deleted file mode 100644 index 5ad1f9850..000000000 --- a/docs/Social_UpdSSData2_data.md +++ /dev/null @@ -1,454 +0,0 @@ ---- -title: "Dataset: UpdSSData2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist_MODIFIED.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader2

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Social_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Social_Electrical.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Social_UpdSSData2_data_graph.md b/docs/Social_UpdSSData2_data_graph.md deleted file mode 100644 index 611ff1a62..000000000 --- a/docs/Social_UpdSSData2_data_graph.md +++ /dev/null @@ -1,452 +0,0 @@ ---- -title: "Dataset: UpdSSData2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist_MODIFIED.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader2

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/UpdSSData2_Social_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/UpdSSData2_Social_Electrical_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Social_UpdSSData2_data_hiveplot.md b/docs/Social_UpdSSData2_data_hiveplot.md deleted file mode 100644 index c4bd25f16..000000000 --- a/docs/Social_UpdSSData2_data_hiveplot.md +++ /dev/null @@ -1,454 +0,0 @@ ---- -title: "Dataset: UpdSSData2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist_MODIFIED.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader2

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Social_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Social_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Social_UpdSSData_data.md b/docs/Social_UpdSSData_data.md deleted file mode 100644 index ddeb575f6..000000000 --- a/docs/Social_UpdSSData_data.md +++ /dev/null @@ -1,454 +0,0 @@ ---- -title: "Dataset: UpdSSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Social_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Social_Electrical.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Social_UpdSSData_data_graph.md b/docs/Social_UpdSSData_data_graph.md deleted file mode 100644 index 7a820d423..000000000 --- a/docs/Social_UpdSSData_data_graph.md +++ /dev/null @@ -1,452 +0,0 @@ ---- -title: "Dataset: UpdSSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/UpdSSData_Social_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/UpdSSData_Social_Electrical_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Social_UpdSSData_data_hiveplot.md b/docs/Social_UpdSSData_data_hiveplot.md deleted file mode 100644 index 6f67376ca..000000000 --- a/docs/Social_UpdSSData_data_hiveplot.md +++ /dev/null @@ -1,454 +0,0 @@ ---- -title: "Dataset: UpdSSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Social_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Social_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Social_Varshney_data.md b/docs/Social_Varshney_data.md deleted file mode 100644 index cf64d6fb4..000000000 --- a/docs/Social_Varshney_data.md +++ /dev/null @@ -1,356 +0,0 @@ ---- -title: "Dataset: Varshney" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Varshney et al. 2011 -

Data extracted from NeuronConnectFormatted.xlsx for neuronal connectivity.   Reader: VarshneyDataReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Varshney_Social_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Varshney_Social_Electrical.json" } - ``` - - -### Neurons (herm) (279) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (23) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_Varshney_data_graph.md b/docs/Social_Varshney_data_graph.md deleted file mode 100644 index 457778a05..000000000 --- a/docs/Social_Varshney_data_graph.md +++ /dev/null @@ -1,354 +0,0 @@ ---- -title: "Dataset: Varshney" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Varshney et al. 2011 -

Data extracted from NeuronConnectFormatted.xlsx for neuronal connectivity.   Reader: VarshneyDataReader

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Varshney_Social_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Varshney_Social_Electrical_graph.json" } - ``` - - -### Neurons (herm) (279) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (23) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_Varshney_data_hiveplot.md b/docs/Social_Varshney_data_hiveplot.md deleted file mode 100644 index 4ca2bbadd..000000000 --- a/docs/Social_Varshney_data_hiveplot.md +++ /dev/null @@ -1,356 +0,0 @@ ---- -title: "Dataset: Varshney" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Varshney et al. 2011 -

Data extracted from NeuronConnectFormatted.xlsx for neuronal connectivity.   Reader: VarshneyDataReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Varshney_Social_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Varshney_Social_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (279) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (23) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_White_A_data.md b/docs/Social_White_A_data.md deleted file mode 100644 index 19f80ef6c..000000000 --- a/docs/Social_White_A_data.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: White_A" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_A.csv - adult (A) N2U series ("The N2U series was from an old hermaphrodite that gave good quality pictures" - White et al. 1986).   Reader: White_A

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/White_A_Social_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_A_Social_Electrical.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Social_White_A_data_graph.md b/docs/Social_White_A_data_graph.md deleted file mode 100644 index a57e6ef00..000000000 --- a/docs/Social_White_A_data_graph.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: White_A" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_A.csv - adult (A) N2U series ("The N2U series was from an old hermaphrodite that gave good quality pictures" - White et al. 1986).   Reader: White_A

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/White_A_Social_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/White_A_Social_Electrical_graph.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Social_White_A_data_hiveplot.md b/docs/Social_White_A_data_hiveplot.md deleted file mode 100644 index 58e7fda9e..000000000 --- a/docs/Social_White_A_data_hiveplot.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: White_A" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_A.csv - adult (A) N2U series ("The N2U series was from an old hermaphrodite that gave good quality pictures" - White et al. 1986).   Reader: White_A

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/White_A_Social_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_A_Social_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Social_White_L4_data.md b/docs/Social_White_L4_data.md deleted file mode 100644 index d6560418d..000000000 --- a/docs/Social_White_L4_data.md +++ /dev/null @@ -1,399 +0,0 @@ ---- -title: "Dataset: White_L4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_L4.csv - JSH series ("The JSH animal was a fourth stage (L4) larva" - White et al. 1986).   Reader: White_L4

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/White_L4_Social_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_L4_Social_Electrical.json" } - ``` - - -### Neurons (herm) (178) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (124) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (5) -
Full list of Other cells in this dataset -CEPshVL - | CEPshVR - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Social_White_L4_data_graph.md b/docs/Social_White_L4_data_graph.md deleted file mode 100644 index f42fb964c..000000000 --- a/docs/Social_White_L4_data_graph.md +++ /dev/null @@ -1,397 +0,0 @@ ---- -title: "Dataset: White_L4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_L4.csv - JSH series ("The JSH animal was a fourth stage (L4) larva" - White et al. 1986).   Reader: White_L4

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/White_L4_Social_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/White_L4_Social_Electrical_graph.json" } - ``` - - -### Neurons (herm) (178) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (124) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (5) -
Full list of Other cells in this dataset -CEPshVL - | CEPshVR - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Social_White_L4_data_hiveplot.md b/docs/Social_White_L4_data_hiveplot.md deleted file mode 100644 index 64e5a5d1c..000000000 --- a/docs/Social_White_L4_data_hiveplot.md +++ /dev/null @@ -1,399 +0,0 @@ ---- -title: "Dataset: White_L4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_L4.csv - JSH series ("The JSH animal was a fourth stage (L4) larva" - White et al. 1986).   Reader: White_L4

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/White_L4_Social_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_L4_Social_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (178) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (124) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (5) -
Full list of Other cells in this dataset -CEPshVL - | CEPshVR - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Social_White_whole_data.md b/docs/Social_White_whole_data.md deleted file mode 100644 index 888db2573..000000000 --- a/docs/Social_White_whole_data.md +++ /dev/null @@ -1,371 +0,0 @@ ---- -title: "Dataset: White_whole" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_whole.csv - all connectivity from White et al. 1986).   Reader: White_whole

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/White_whole_Social_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_whole_Social_Electrical.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (3) -
Full list of Muscles in this dataset -BWM - | pm1 - | pm4_UNSPECIFIED - -
- -### Other cells (6) -
Full list of Other cells in this dataset -GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Social_White_whole_data_graph.md b/docs/Social_White_whole_data_graph.md deleted file mode 100644 index c32dba1cb..000000000 --- a/docs/Social_White_whole_data_graph.md +++ /dev/null @@ -1,369 +0,0 @@ ---- -title: "Dataset: White_whole" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_whole.csv - all connectivity from White et al. 1986).   Reader: White_whole

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/White_whole_Social_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/White_whole_Social_Electrical_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (3) -
Full list of Muscles in this dataset -BWM - | pm1 - | pm4_UNSPECIFIED - -
- -### Other cells (6) -
Full list of Other cells in this dataset -GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Social_White_whole_data_hiveplot.md b/docs/Social_White_whole_data_hiveplot.md deleted file mode 100644 index 2179d5018..000000000 --- a/docs/Social_White_whole_data_hiveplot.md +++ /dev/null @@ -1,371 +0,0 @@ ---- -title: "Dataset: White_whole" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_whole.csv - all connectivity from White et al. 1986).   Reader: White_whole

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/White_whole_Social_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_whole_Social_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (3) -
Full list of Muscles in this dataset -BWM - | pm1 - | pm4_UNSPECIFIED - -
- -### Other cells (6) -
Full list of Other cells in this dataset -GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Social_Witvliet1_data.md b/docs/Social_Witvliet1_data.md deleted file mode 100644 index 9544d2b98..000000000 --- a/docs/Social_Witvliet1_data.md +++ /dev/null @@ -1,388 +0,0 @@ ---- -title: "Dataset: Witvliet1" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_1.xlsx - Witvliet dataset 1 (L1 stage).   Reader: WitvlietDataReader1

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet1_Social_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet1_Social_Electrical.json" } - ``` - - -### Neurons (herm) (161) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (141) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVL - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (17) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Social_Witvliet1_data_graph.md b/docs/Social_Witvliet1_data_graph.md deleted file mode 100644 index 3e0079137..000000000 --- a/docs/Social_Witvliet1_data_graph.md +++ /dev/null @@ -1,386 +0,0 @@ ---- -title: "Dataset: Witvliet1" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_1.xlsx - Witvliet dataset 1 (L1 stage).   Reader: WitvlietDataReader1

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Witvliet1_Social_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet1_Social_Electrical_graph.json" } - ``` - - -### Neurons (herm) (161) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (141) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVL - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (17) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Social_Witvliet1_data_hiveplot.md b/docs/Social_Witvliet1_data_hiveplot.md deleted file mode 100644 index 7eccab79c..000000000 --- a/docs/Social_Witvliet1_data_hiveplot.md +++ /dev/null @@ -1,388 +0,0 @@ ---- -title: "Dataset: Witvliet1" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_1.xlsx - Witvliet dataset 1 (L1 stage).   Reader: WitvlietDataReader1

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet1_Social_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet1_Social_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (161) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (141) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVL - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (17) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Social_Witvliet2_data.md b/docs/Social_Witvliet2_data.md deleted file mode 100644 index 1fa0cb011..000000000 --- a/docs/Social_Witvliet2_data.md +++ /dev/null @@ -1,394 +0,0 @@ ---- -title: "Dataset: Witvliet2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_2.xlsx - Witvliet dataset 2 (L1 stage).   Reader: WitvlietDataReader2

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet2_Social_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet2_Social_Electrical.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (21) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (11) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | exc_gl - -
diff --git a/docs/Social_Witvliet2_data_graph.md b/docs/Social_Witvliet2_data_graph.md deleted file mode 100644 index d4a6fc9ac..000000000 --- a/docs/Social_Witvliet2_data_graph.md +++ /dev/null @@ -1,392 +0,0 @@ ---- -title: "Dataset: Witvliet2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_2.xlsx - Witvliet dataset 2 (L1 stage).   Reader: WitvlietDataReader2

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Witvliet2_Social_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet2_Social_Electrical_graph.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (21) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (11) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | exc_gl - -
diff --git a/docs/Social_Witvliet2_data_hiveplot.md b/docs/Social_Witvliet2_data_hiveplot.md deleted file mode 100644 index ab8cc0e25..000000000 --- a/docs/Social_Witvliet2_data_hiveplot.md +++ /dev/null @@ -1,394 +0,0 @@ ---- -title: "Dataset: Witvliet2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_2.xlsx - Witvliet dataset 2 (L1 stage).   Reader: WitvlietDataReader2

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet2_Social_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet2_Social_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (21) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (11) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | exc_gl - -
diff --git a/docs/Social_Witvliet3_data.md b/docs/Social_Witvliet3_data.md deleted file mode 100644 index 5915174c5..000000000 --- a/docs/Social_Witvliet3_data.md +++ /dev/null @@ -1,398 +0,0 @@ ---- -title: "Dataset: Witvliet3" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_3.xlsx - Witvliet dataset 3 (L1 stage).   Reader: WitvlietDataReader3

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet3_Social_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet3_Social_Electrical.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (27) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Social_Witvliet3_data_graph.md b/docs/Social_Witvliet3_data_graph.md deleted file mode 100644 index 69a6f76f7..000000000 --- a/docs/Social_Witvliet3_data_graph.md +++ /dev/null @@ -1,396 +0,0 @@ ---- -title: "Dataset: Witvliet3" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_3.xlsx - Witvliet dataset 3 (L1 stage).   Reader: WitvlietDataReader3

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Witvliet3_Social_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet3_Social_Electrical_graph.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (27) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Social_Witvliet3_data_hiveplot.md b/docs/Social_Witvliet3_data_hiveplot.md deleted file mode 100644 index dbcb17e7d..000000000 --- a/docs/Social_Witvliet3_data_hiveplot.md +++ /dev/null @@ -1,398 +0,0 @@ ---- -title: "Dataset: Witvliet3" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_3.xlsx - Witvliet dataset 3 (L1 stage).   Reader: WitvlietDataReader3

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet3_Social_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet3_Social_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (27) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Social_Witvliet4_data.md b/docs/Social_Witvliet4_data.md deleted file mode 100644 index c280ad0ea..000000000 --- a/docs/Social_Witvliet4_data.md +++ /dev/null @@ -1,398 +0,0 @@ ---- -title: "Dataset: Witvliet4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_4.xlsx - Witvliet dataset 4 (L1 stage).   Reader: WitvlietDataReader4

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet4_Social_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet4_Social_Electrical.json" } - ``` - - -### Neurons (herm) (168) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (134) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | SABD - | SABVL - | SABVR - | SDQL - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (26) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (10) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Social_Witvliet4_data_graph.md b/docs/Social_Witvliet4_data_graph.md deleted file mode 100644 index 972fb5a5c..000000000 --- a/docs/Social_Witvliet4_data_graph.md +++ /dev/null @@ -1,396 +0,0 @@ ---- -title: "Dataset: Witvliet4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_4.xlsx - Witvliet dataset 4 (L1 stage).   Reader: WitvlietDataReader4

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Witvliet4_Social_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet4_Social_Electrical_graph.json" } - ``` - - -### Neurons (herm) (168) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (134) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | SABD - | SABVL - | SABVR - | SDQL - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (26) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (10) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Social_Witvliet4_data_hiveplot.md b/docs/Social_Witvliet4_data_hiveplot.md deleted file mode 100644 index 4c9cd86db..000000000 --- a/docs/Social_Witvliet4_data_hiveplot.md +++ /dev/null @@ -1,398 +0,0 @@ ---- -title: "Dataset: Witvliet4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_4.xlsx - Witvliet dataset 4 (L1 stage).   Reader: WitvlietDataReader4

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet4_Social_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet4_Social_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (168) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (134) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | SABD - | SABVL - | SABVR - | SDQL - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (26) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (10) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Social_Witvliet5_data.md b/docs/Social_Witvliet5_data.md deleted file mode 100644 index a71b21d75..000000000 --- a/docs/Social_Witvliet5_data.md +++ /dev/null @@ -1,399 +0,0 @@ ---- -title: "Dataset: Witvliet5" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_5.xlsx - Witvliet dataset 5 (L2 stage).   Reader: WitvlietDataReader5

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet5_Social_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet5_Social_Electrical.json" } - ``` - - -### Neurons (herm) (174) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DB1 - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (128) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (28) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Social_Witvliet5_data_graph.md b/docs/Social_Witvliet5_data_graph.md deleted file mode 100644 index e53ab1a82..000000000 --- a/docs/Social_Witvliet5_data_graph.md +++ /dev/null @@ -1,397 +0,0 @@ ---- -title: "Dataset: Witvliet5" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_5.xlsx - Witvliet dataset 5 (L2 stage).   Reader: WitvlietDataReader5

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Witvliet5_Social_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet5_Social_Electrical_graph.json" } - ``` - - -### Neurons (herm) (174) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DB1 - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (128) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (28) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Social_Witvliet5_data_hiveplot.md b/docs/Social_Witvliet5_data_hiveplot.md deleted file mode 100644 index 59bf498c6..000000000 --- a/docs/Social_Witvliet5_data_hiveplot.md +++ /dev/null @@ -1,399 +0,0 @@ ---- -title: "Dataset: Witvliet5" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_5.xlsx - Witvliet dataset 5 (L2 stage).   Reader: WitvlietDataReader5

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet5_Social_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet5_Social_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (174) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DB1 - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (128) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (28) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Social_Witvliet6_data.md b/docs/Social_Witvliet6_data.md deleted file mode 100644 index e96936c4a..000000000 --- a/docs/Social_Witvliet6_data.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Witvliet6" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_6.xlsx - Witvliet dataset 6 (L3 stage).   Reader: WitvlietDataReader6

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet6_Social_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet6_Social_Electrical.json" } - ``` - - -### Neurons (herm) (175) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (127) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Social_Witvliet6_data_graph.md b/docs/Social_Witvliet6_data_graph.md deleted file mode 100644 index 83fecaee9..000000000 --- a/docs/Social_Witvliet6_data_graph.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: Witvliet6" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_6.xlsx - Witvliet dataset 6 (L3 stage).   Reader: WitvlietDataReader6

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Witvliet6_Social_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet6_Social_Electrical_graph.json" } - ``` - - -### Neurons (herm) (175) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (127) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Social_Witvliet6_data_hiveplot.md b/docs/Social_Witvliet6_data_hiveplot.md deleted file mode 100644 index df8573d58..000000000 --- a/docs/Social_Witvliet6_data_hiveplot.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Witvliet6" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_6.xlsx - Witvliet dataset 6 (L3 stage).   Reader: WitvlietDataReader6

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet6_Social_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet6_Social_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (175) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (127) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Social_Witvliet7_data.md b/docs/Social_Witvliet7_data.md deleted file mode 100644 index 6a3e49ec9..000000000 --- a/docs/Social_Witvliet7_data.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Witvliet7" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_7.xlsx - Witvliet dataset 7 (adult stage).   Reader: WitvlietDataReader7

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet7_Social_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet7_Social_Electrical.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVR - -
diff --git a/docs/Social_Witvliet7_data_graph.md b/docs/Social_Witvliet7_data_graph.md deleted file mode 100644 index 939da0b7d..000000000 --- a/docs/Social_Witvliet7_data_graph.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: Witvliet7" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_7.xlsx - Witvliet dataset 7 (adult stage).   Reader: WitvlietDataReader7

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Witvliet7_Social_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet7_Social_Electrical_graph.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVR - -
diff --git a/docs/Social_Witvliet7_data_hiveplot.md b/docs/Social_Witvliet7_data_hiveplot.md deleted file mode 100644 index d564f26d8..000000000 --- a/docs/Social_Witvliet7_data_hiveplot.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Witvliet7" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_7.xlsx - Witvliet dataset 7 (adult stage).   Reader: WitvlietDataReader7

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet7_Social_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet7_Social_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVR - -
diff --git a/docs/Social_Witvliet8_data.md b/docs/Social_Witvliet8_data.md deleted file mode 100644 index ff637b316..000000000 --- a/docs/Social_Witvliet8_data.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: Witvliet8" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_8.xlsx - Witvliet dataset 8 (adult stage).   Reader: WitvlietDataReader8

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet8_Social_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet8_Social_Electrical.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (7) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRR - | GLRVL - -
diff --git a/docs/Social_Witvliet8_data_graph.md b/docs/Social_Witvliet8_data_graph.md deleted file mode 100644 index 4e7acdf59..000000000 --- a/docs/Social_Witvliet8_data_graph.md +++ /dev/null @@ -1,399 +0,0 @@ ---- -title: "Dataset: Witvliet8" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_8.xlsx - Witvliet dataset 8 (adult stage).   Reader: WitvlietDataReader8

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/Witvliet8_Social_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet8_Social_Electrical_graph.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (7) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRR - | GLRVL - -
diff --git a/docs/Social_Witvliet8_data_hiveplot.md b/docs/Social_Witvliet8_data_hiveplot.md deleted file mode 100644 index 5b06d7fbd..000000000 --- a/docs/Social_Witvliet8_data_hiveplot.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: Witvliet8" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_8.xlsx - Witvliet dataset 8 (adult stage).   Reader: WitvlietDataReader8

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/Witvliet8_Social_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet8_Social_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (7) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRR - | GLRVL - -
diff --git a/docs/Social_WormNeuroAtlas_data.md b/docs/Social_WormNeuroAtlas_data.md deleted file mode 100644 index 03c6e0999..000000000 --- a/docs/Social_WormNeuroAtlas_data.md +++ /dev/null @@ -1,356 +0,0 @@ ---- -title: "Dataset: WormNeuroAtlas" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)** for neuronal connectivity.   Reader: WormNeuroAtlasReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Social_Chemical_Exc.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Social_Electrical.json" } - ``` - - -### Neurons (herm) (298) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (4) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AWCL - | AWCR - | CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_WormNeuroAtlas_data_graph.md b/docs/Social_WormNeuroAtlas_data_graph.md deleted file mode 100644 index 4b63b84b7..000000000 --- a/docs/Social_WormNeuroAtlas_data_graph.md +++ /dev/null @@ -1,354 +0,0 @@ ---- -title: "Dataset: WormNeuroAtlas" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)** for neuronal connectivity.   Reader: WormNeuroAtlasReader

- -=== "Chemical Exc" - - ```plotly - { "file_path": "./assets/WormNeuroAtlas_Social_Chemical_Exc_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/WormNeuroAtlas_Social_Electrical_graph.json" } - ``` - - -### Neurons (herm) (298) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (4) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AWCL - | AWCR - | CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Social_WormNeuroAtlas_data_hiveplot.md b/docs/Social_WormNeuroAtlas_data_hiveplot.md deleted file mode 100644 index ebd52de3d..000000000 --- a/docs/Social_WormNeuroAtlas_data_hiveplot.md +++ /dev/null @@ -1,356 +0,0 @@ ---- -title: "Dataset: WormNeuroAtlas" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - Hub and spoke circuit for social behavior as in Macosko et al. 2009 - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)** for neuronal connectivity.   Reader: WormNeuroAtlasReader

- -=== "Chemical Exc" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Social_Chemical_Exc_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Social_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (298) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (4) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AWCL - | AWCR - | CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/UpdSSData2_data.md b/docs/UpdSSData2_data.md deleted file mode 100644 index 2c59bd0ad..000000000 --- a/docs/UpdSSData2_data.md +++ /dev/null @@ -1,454 +0,0 @@ ---- -title: "Dataset: UpdSSData2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist_MODIFIED.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader2

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Raw_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Raw_Electrical.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/UpdSSData2_data_graph.md b/docs/UpdSSData2_data_graph.md deleted file mode 100644 index adf239033..000000000 --- a/docs/UpdSSData2_data_graph.md +++ /dev/null @@ -1,452 +0,0 @@ ---- -title: "Dataset: UpdSSData2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist_MODIFIED.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader2

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/UpdSSData2_Raw_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/UpdSSData2_Raw_Electrical_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/UpdSSData2_data_hiveplot.md b/docs/UpdSSData2_data_hiveplot.md deleted file mode 100644 index ca5b17338..000000000 --- a/docs/UpdSSData2_data_hiveplot.md +++ /dev/null @@ -1,454 +0,0 @@ ---- -title: "Dataset: UpdSSData2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist_MODIFIED.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader2

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Raw_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/UpdSSData2_Raw_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/UpdSSData_data.md b/docs/UpdSSData_data.md deleted file mode 100644 index 0953a86ea..000000000 --- a/docs/UpdSSData_data.md +++ /dev/null @@ -1,454 +0,0 @@ ---- -title: "Dataset: UpdSSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Raw_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Raw_Electrical.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/UpdSSData_data_graph.md b/docs/UpdSSData_data_graph.md deleted file mode 100644 index cd3ebbabe..000000000 --- a/docs/UpdSSData_data_graph.md +++ /dev/null @@ -1,452 +0,0 @@ ---- -title: "Dataset: UpdSSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/UpdSSData_Raw_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/UpdSSData_Raw_Electrical_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/UpdSSData_data_hiveplot.md b/docs/UpdSSData_data_hiveplot.md deleted file mode 100644 index ec0f8c619..000000000 --- a/docs/UpdSSData_data_hiveplot.md +++ /dev/null @@ -1,454 +0,0 @@ ---- -title: "Dataset: UpdSSData" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

- -

Data extracted from herm_full_edgelist.csv for neuronal connectivity. Note: legacy dataset (based on Cook et al. 2019) used in the past in OpenWorm. Only included here for reference! Do not use!.   Reader: UpdatedSpreadsheetDataReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Raw_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/UpdSSData_Raw_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (95) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDL09 - | MDL10 - | MDL11 - | MDL12 - | MDL13 - | MDL14 - | MDL15 - | MDL16 - | MDL17 - | MDL18 - | MDL19 - | MDL20 - | MDL21 - | MDL22 - | MDL23 - | MDL24 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MDR09 - | MDR10 - | MDR11 - | MDR12 - | MDR13 - | MDR14 - | MDR15 - | MDR16 - | MDR17 - | MDR18 - | MDR19 - | MDR20 - | MDR21 - | MDR22 - | MDR23 - | MDR24 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVL09 - | MVL10 - | MVL11 - | MVL12 - | MVL13 - | MVL14 - | MVL15 - | MVL16 - | MVL17 - | MVL18 - | MVL19 - | MVL20 - | MVL21 - | MVL22 - | MVL23 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - | MVR09 - | MVR10 - | MVR11 - | MVR12 - | MVR13 - | MVR14 - | MVR15 - | MVR16 - | MVR17 - | MVR18 - | MVR19 - | MVR20 - | MVR21 - | MVR22 - | MVR23 - | MVR24 - -
- -### Other cells (0) diff --git a/docs/Varshney_data.md b/docs/Varshney_data.md deleted file mode 100644 index 9ea2141ff..000000000 --- a/docs/Varshney_data.md +++ /dev/null @@ -1,356 +0,0 @@ ---- -title: "Dataset: Varshney" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Varshney et al. 2011 -

Data extracted from NeuronConnectFormatted.xlsx for neuronal connectivity.   Reader: VarshneyDataReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Varshney_Raw_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Varshney_Raw_Electrical.json" } - ``` - - -### Neurons (herm) (279) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (23) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Varshney_data_graph.md b/docs/Varshney_data_graph.md deleted file mode 100644 index d0df8ea7a..000000000 --- a/docs/Varshney_data_graph.md +++ /dev/null @@ -1,354 +0,0 @@ ---- -title: "Dataset: Varshney" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Varshney et al. 2011 -

Data extracted from NeuronConnectFormatted.xlsx for neuronal connectivity.   Reader: VarshneyDataReader

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Varshney_Raw_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Varshney_Raw_Electrical_graph.json" } - ``` - - -### Neurons (herm) (279) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (23) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/Varshney_data_hiveplot.md b/docs/Varshney_data_hiveplot.md deleted file mode 100644 index 8613839df..000000000 --- a/docs/Varshney_data_hiveplot.md +++ /dev/null @@ -1,356 +0,0 @@ ---- -title: "Dataset: Varshney" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Varshney et al. 2011 -

Data extracted from NeuronConnectFormatted.xlsx for neuronal connectivity.   Reader: VarshneyDataReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Varshney_Raw_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Varshney_Raw_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (279) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (23) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | VC6 - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/White_A_data.md b/docs/White_A_data.md deleted file mode 100644 index 8f90e3154..000000000 --- a/docs/White_A_data.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: White_A" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_A.csv - adult (A) N2U series ("The N2U series was from an old hermaphrodite that gave good quality pictures" - White et al. 1986).   Reader: White_A

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/White_A_Raw_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_A_Raw_Electrical.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/White_A_data_graph.md b/docs/White_A_data_graph.md deleted file mode 100644 index 49219c59f..000000000 --- a/docs/White_A_data_graph.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: White_A" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_A.csv - adult (A) N2U series ("The N2U series was from an old hermaphrodite that gave good quality pictures" - White et al. 1986).   Reader: White_A

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/White_A_Raw_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/White_A_Raw_Electrical_graph.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/White_A_data_hiveplot.md b/docs/White_A_data_hiveplot.md deleted file mode 100644 index 38b58c4ee..000000000 --- a/docs/White_A_data_hiveplot.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: White_A" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_A.csv - adult (A) N2U series ("The N2U series was from an old hermaphrodite that gave good quality pictures" - White et al. 1986).   Reader: White_A

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/White_A_Raw_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_A_Raw_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/White_L4_data.md b/docs/White_L4_data.md deleted file mode 100644 index ada2529d2..000000000 --- a/docs/White_L4_data.md +++ /dev/null @@ -1,399 +0,0 @@ ---- -title: "Dataset: White_L4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_L4.csv - JSH series ("The JSH animal was a fourth stage (L4) larva" - White et al. 1986).   Reader: White_L4

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/White_L4_Raw_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_L4_Raw_Electrical.json" } - ``` - - -### Neurons (herm) (178) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (124) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (5) -
Full list of Other cells in this dataset -CEPshVL - | CEPshVR - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/White_L4_data_graph.md b/docs/White_L4_data_graph.md deleted file mode 100644 index 8243f7d12..000000000 --- a/docs/White_L4_data_graph.md +++ /dev/null @@ -1,397 +0,0 @@ ---- -title: "Dataset: White_L4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_L4.csv - JSH series ("The JSH animal was a fourth stage (L4) larva" - White et al. 1986).   Reader: White_L4

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/White_L4_Raw_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/White_L4_Raw_Electrical_graph.json" } - ``` - - -### Neurons (herm) (178) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (124) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (5) -
Full list of Other cells in this dataset -CEPshVL - | CEPshVR - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/White_L4_data_hiveplot.md b/docs/White_L4_data_hiveplot.md deleted file mode 100644 index ad933e6d1..000000000 --- a/docs/White_L4_data_hiveplot.md +++ /dev/null @@ -1,399 +0,0 @@ ---- -title: "Dataset: White_L4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_L4.csv - JSH series ("The JSH animal was a fourth stage (L4) larva" - White et al. 1986).   Reader: White_L4

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/White_L4_Raw_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_L4_Raw_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (178) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (124) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (5) -
Full list of Other cells in this dataset -CEPshVL - | CEPshVR - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/White_whole_data.md b/docs/White_whole_data.md deleted file mode 100644 index 9a0a0cb1c..000000000 --- a/docs/White_whole_data.md +++ /dev/null @@ -1,371 +0,0 @@ ---- -title: "Dataset: White_whole" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_whole.csv - all connectivity from White et al. 1986).   Reader: White_whole

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/White_whole_Raw_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_whole_Raw_Electrical.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (3) -
Full list of Muscles in this dataset -BWM - | pm1 - | pm4_UNSPECIFIED - -
- -### Other cells (6) -
Full list of Other cells in this dataset -GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/White_whole_data_graph.md b/docs/White_whole_data_graph.md deleted file mode 100644 index 9b7137826..000000000 --- a/docs/White_whole_data_graph.md +++ /dev/null @@ -1,369 +0,0 @@ ---- -title: "Dataset: White_whole" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_whole.csv - all connectivity from White et al. 1986).   Reader: White_whole

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/White_whole_Raw_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/White_whole_Raw_Electrical_graph.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (3) -
Full list of Muscles in this dataset -BWM - | pm1 - | pm4_UNSPECIFIED - -
- -### Other cells (6) -
Full list of Other cells in this dataset -GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/White_whole_data_hiveplot.md b/docs/White_whole_data_hiveplot.md deleted file mode 100644 index acae332b7..000000000 --- a/docs/White_whole_data_hiveplot.md +++ /dev/null @@ -1,371 +0,0 @@ ---- -title: "Dataset: White_whole" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from White et al. 1986 -

Data extracted from aconnectome_white_1986_whole.csv - all connectivity from White et al. 1986).   Reader: White_whole

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/White_whole_Raw_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/White_whole_Raw_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (300) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (2) -
Full list of Missing neurons (known hermaphrodite neurons not present) -CANL - | CANR - -
- -### Muscles (3) -
Full list of Muscles in this dataset -BWM - | pm1 - | pm4_UNSPECIFIED - -
- -### Other cells (6) -
Full list of Other cells in this dataset -GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Witvliet1_data.md b/docs/Witvliet1_data.md deleted file mode 100644 index b5dde0ac0..000000000 --- a/docs/Witvliet1_data.md +++ /dev/null @@ -1,388 +0,0 @@ ---- -title: "Dataset: Witvliet1" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_1.xlsx - Witvliet dataset 1 (L1 stage).   Reader: WitvlietDataReader1

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet1_Raw_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet1_Raw_Electrical.json" } - ``` - - -### Neurons (herm) (161) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (141) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVL - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (17) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Witvliet1_data_graph.md b/docs/Witvliet1_data_graph.md deleted file mode 100644 index 2c7521d78..000000000 --- a/docs/Witvliet1_data_graph.md +++ /dev/null @@ -1,386 +0,0 @@ ---- -title: "Dataset: Witvliet1" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_1.xlsx - Witvliet dataset 1 (L1 stage).   Reader: WitvlietDataReader1

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Witvliet1_Raw_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet1_Raw_Electrical_graph.json" } - ``` - - -### Neurons (herm) (161) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (141) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVL - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (17) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Witvliet1_data_hiveplot.md b/docs/Witvliet1_data_hiveplot.md deleted file mode 100644 index 670656858..000000000 --- a/docs/Witvliet1_data_hiveplot.md +++ /dev/null @@ -1,388 +0,0 @@ ---- -title: "Dataset: Witvliet1" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_1.xlsx - Witvliet dataset 1 (L1 stage).   Reader: WitvlietDataReader1

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet1_Raw_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet1_Raw_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (161) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (141) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVL - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (17) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Witvliet2_data.md b/docs/Witvliet2_data.md deleted file mode 100644 index 7325a1daf..000000000 --- a/docs/Witvliet2_data.md +++ /dev/null @@ -1,394 +0,0 @@ ---- -title: "Dataset: Witvliet2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_2.xlsx - Witvliet dataset 2 (L1 stage).   Reader: WitvlietDataReader2

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet2_Raw_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet2_Raw_Electrical.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (21) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (11) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | exc_gl - -
diff --git a/docs/Witvliet2_data_graph.md b/docs/Witvliet2_data_graph.md deleted file mode 100644 index 2b0659d3a..000000000 --- a/docs/Witvliet2_data_graph.md +++ /dev/null @@ -1,392 +0,0 @@ ---- -title: "Dataset: Witvliet2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_2.xlsx - Witvliet dataset 2 (L1 stage).   Reader: WitvlietDataReader2

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Witvliet2_Raw_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet2_Raw_Electrical_graph.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (21) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (11) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | exc_gl - -
diff --git a/docs/Witvliet2_data_hiveplot.md b/docs/Witvliet2_data_hiveplot.md deleted file mode 100644 index 178f7825e..000000000 --- a/docs/Witvliet2_data_hiveplot.md +++ /dev/null @@ -1,394 +0,0 @@ ---- -title: "Dataset: Witvliet2" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_2.xlsx - Witvliet dataset 2 (L1 stage).   Reader: WitvlietDataReader2

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet2_Raw_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet2_Raw_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (21) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - -
- -### Other cells (11) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - | exc_gl - -
diff --git a/docs/Witvliet3_data.md b/docs/Witvliet3_data.md deleted file mode 100644 index e7543e255..000000000 --- a/docs/Witvliet3_data.md +++ /dev/null @@ -1,398 +0,0 @@ ---- -title: "Dataset: Witvliet3" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_3.xlsx - Witvliet dataset 3 (L1 stage).   Reader: WitvlietDataReader3

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet3_Raw_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet3_Raw_Electrical.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (27) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Witvliet3_data_graph.md b/docs/Witvliet3_data_graph.md deleted file mode 100644 index cc7a66cdc..000000000 --- a/docs/Witvliet3_data_graph.md +++ /dev/null @@ -1,396 +0,0 @@ ---- -title: "Dataset: Witvliet3" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_3.xlsx - Witvliet dataset 3 (L1 stage).   Reader: WitvlietDataReader3

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Witvliet3_Raw_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet3_Raw_Electrical_graph.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (27) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Witvliet3_data_hiveplot.md b/docs/Witvliet3_data_hiveplot.md deleted file mode 100644 index 89f6811e0..000000000 --- a/docs/Witvliet3_data_hiveplot.md +++ /dev/null @@ -1,398 +0,0 @@ ---- -title: "Dataset: Witvliet3" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_3.xlsx - Witvliet dataset 3 (L1 stage).   Reader: WitvlietDataReader3

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet3_Raw_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet3_Raw_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (162) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (140) -
Full list of Missing neurons (known hermaphrodite neurons not present) -ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | RMHL - | RMHR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (27) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Witvliet4_data.md b/docs/Witvliet4_data.md deleted file mode 100644 index da6658221..000000000 --- a/docs/Witvliet4_data.md +++ /dev/null @@ -1,398 +0,0 @@ ---- -title: "Dataset: Witvliet4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_4.xlsx - Witvliet dataset 4 (L1 stage).   Reader: WitvlietDataReader4

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet4_Raw_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet4_Raw_Electrical.json" } - ``` - - -### Neurons (herm) (168) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (134) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | SABD - | SABVL - | SABVR - | SDQL - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (26) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (10) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Witvliet4_data_graph.md b/docs/Witvliet4_data_graph.md deleted file mode 100644 index 5e7d6f549..000000000 --- a/docs/Witvliet4_data_graph.md +++ /dev/null @@ -1,396 +0,0 @@ ---- -title: "Dataset: Witvliet4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_4.xlsx - Witvliet dataset 4 (L1 stage).   Reader: WitvlietDataReader4

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Witvliet4_Raw_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet4_Raw_Electrical_graph.json" } - ``` - - -### Neurons (herm) (168) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (134) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | SABD - | SABVL - | SABVR - | SDQL - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (26) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (10) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Witvliet4_data_hiveplot.md b/docs/Witvliet4_data_hiveplot.md deleted file mode 100644 index a625788c2..000000000 --- a/docs/Witvliet4_data_hiveplot.md +++ /dev/null @@ -1,398 +0,0 @@ ---- -title: "Dataset: Witvliet4" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_4.xlsx - Witvliet dataset 4 (L1 stage).   Reader: WitvlietDataReader4

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet4_Raw_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet4_Raw_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (168) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (134) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVFL - | AVFR - | AVG - | AVM - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFL - | RMFR - | SABD - | SABVL - | SABVR - | SDQL - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (26) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - -
- -### Other cells (10) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Witvliet5_data.md b/docs/Witvliet5_data.md deleted file mode 100644 index ace70bdef..000000000 --- a/docs/Witvliet5_data.md +++ /dev/null @@ -1,399 +0,0 @@ ---- -title: "Dataset: Witvliet5" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_5.xlsx - Witvliet dataset 5 (L2 stage).   Reader: WitvlietDataReader5

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet5_Raw_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet5_Raw_Electrical.json" } - ``` - - -### Neurons (herm) (174) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DB1 - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (128) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (28) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Witvliet5_data_graph.md b/docs/Witvliet5_data_graph.md deleted file mode 100644 index ed4a85c10..000000000 --- a/docs/Witvliet5_data_graph.md +++ /dev/null @@ -1,397 +0,0 @@ ---- -title: "Dataset: Witvliet5" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_5.xlsx - Witvliet dataset 5 (L2 stage).   Reader: WitvlietDataReader5

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Witvliet5_Raw_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet5_Raw_Electrical_graph.json" } - ``` - - -### Neurons (herm) (174) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DB1 - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (128) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (28) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Witvliet5_data_hiveplot.md b/docs/Witvliet5_data_hiveplot.md deleted file mode 100644 index edd462668..000000000 --- a/docs/Witvliet5_data_hiveplot.md +++ /dev/null @@ -1,399 +0,0 @@ ---- -title: "Dataset: Witvliet5" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_5.xlsx - Witvliet dataset 5 (L2 stage).   Reader: WitvlietDataReader5

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet5_Raw_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet5_Raw_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (174) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DB1 - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (128) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | RMFR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (28) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRVL - | GLRVR - -
diff --git a/docs/Witvliet6_data.md b/docs/Witvliet6_data.md deleted file mode 100644 index 0a772fec6..000000000 --- a/docs/Witvliet6_data.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Witvliet6" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_6.xlsx - Witvliet dataset 6 (L3 stage).   Reader: WitvlietDataReader6

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet6_Raw_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet6_Raw_Electrical.json" } - ``` - - -### Neurons (herm) (175) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (127) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Witvliet6_data_graph.md b/docs/Witvliet6_data_graph.md deleted file mode 100644 index b03ae2050..000000000 --- a/docs/Witvliet6_data_graph.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: Witvliet6" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_6.xlsx - Witvliet dataset 6 (L3 stage).   Reader: WitvlietDataReader6

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Witvliet6_Raw_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet6_Raw_Electrical_graph.json" } - ``` - - -### Neurons (herm) (175) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (127) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Witvliet6_data_hiveplot.md b/docs/Witvliet6_data_hiveplot.md deleted file mode 100644 index be1e6348d..000000000 --- a/docs/Witvliet6_data_hiveplot.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Witvliet6" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_6.xlsx - Witvliet dataset 6 (L3 stage).   Reader: WitvlietDataReader6

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet6_Raw_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet6_Raw_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (175) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PVCL - | PVCR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (127) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRL - | GLRR - | GLRVL - | GLRVR - -
diff --git a/docs/Witvliet7_data.md b/docs/Witvliet7_data.md deleted file mode 100644 index 0c0d4676c..000000000 --- a/docs/Witvliet7_data.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Witvliet7" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_7.xlsx - Witvliet dataset 7 (adult stage).   Reader: WitvlietDataReader7

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet7_Raw_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet7_Raw_Electrical.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVR - -
diff --git a/docs/Witvliet7_data_graph.md b/docs/Witvliet7_data_graph.md deleted file mode 100644 index 9f4d189b0..000000000 --- a/docs/Witvliet7_data_graph.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: Witvliet7" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_7.xlsx - Witvliet dataset 7 (adult stage).   Reader: WitvlietDataReader7

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Witvliet7_Raw_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet7_Raw_Electrical_graph.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVR - -
diff --git a/docs/Witvliet7_data_hiveplot.md b/docs/Witvliet7_data_hiveplot.md deleted file mode 100644 index fb18fe3d0..000000000 --- a/docs/Witvliet7_data_hiveplot.md +++ /dev/null @@ -1,403 +0,0 @@ ---- -title: "Dataset: Witvliet7" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_7.xlsx - Witvliet dataset 7 (adult stage).   Reader: WitvlietDataReader7

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet7_Raw_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet7_Raw_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (181) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CANR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (121) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (9) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDL - | GLRDR - | GLRL - | GLRR - | GLRVR - -
diff --git a/docs/Witvliet8_data.md b/docs/Witvliet8_data.md deleted file mode 100644 index 3110d4c23..000000000 --- a/docs/Witvliet8_data.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: Witvliet8" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_8.xlsx - Witvliet dataset 8 (adult stage).   Reader: WitvlietDataReader8

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet8_Raw_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet8_Raw_Electrical.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (7) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRR - | GLRVL - -
diff --git a/docs/Witvliet8_data_graph.md b/docs/Witvliet8_data_graph.md deleted file mode 100644 index 88add2703..000000000 --- a/docs/Witvliet8_data_graph.md +++ /dev/null @@ -1,399 +0,0 @@ ---- -title: "Dataset: Witvliet8" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_8.xlsx - Witvliet dataset 8 (adult stage).   Reader: WitvlietDataReader8

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/Witvliet8_Raw_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/Witvliet8_Raw_Electrical_graph.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (7) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRR - | GLRVL - -
diff --git a/docs/Witvliet8_data_hiveplot.md b/docs/Witvliet8_data_hiveplot.md deleted file mode 100644 index fd10a4500..000000000 --- a/docs/Witvliet8_data_hiveplot.md +++ /dev/null @@ -1,401 +0,0 @@ ---- -title: "Dataset: Witvliet8" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Witvliet et al. 2021 -

Data extracted from witvliet_2020_8.xlsx - Witvliet dataset 8 (adult stage).   Reader: WitvlietDataReader8

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/Witvliet8_Raw_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/Witvliet8_Raw_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (180) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | AWCL - | AWCR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DVA - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PLNL - | PLNR - | PVCL - | PVCR - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - -
- -### Missing neurons (122) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | AVG - | CANL - | CANR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVB - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PQR - | PVDL - | PVDR - | PVM - | PVWL - | PVWR - | SABD - | SABVL - | SABVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Muscles (32) -
Full list of Muscles in this dataset -MDL01 - | MDL02 - | MDL03 - | MDL04 - | MDL05 - | MDL06 - | MDL07 - | MDL08 - | MDR01 - | MDR02 - | MDR03 - | MDR04 - | MDR05 - | MDR06 - | MDR07 - | MDR08 - | MVL01 - | MVL02 - | MVL03 - | MVL04 - | MVL05 - | MVL06 - | MVL07 - | MVL08 - | MVR01 - | MVR02 - | MVR03 - | MVR04 - | MVR05 - | MVR06 - | MVR07 - | MVR08 - -
- -### Other cells (7) -
Full list of Other cells in this dataset -CEPshDL - | CEPshDR - | CEPshVL - | CEPshVR - | GLRDR - | GLRR - | GLRVL - -
diff --git a/docs/WormNeuroAtlas_data.md b/docs/WormNeuroAtlas_data.md deleted file mode 100644 index 557dafa97..000000000 --- a/docs/WormNeuroAtlas_data.md +++ /dev/null @@ -1,356 +0,0 @@ ---- -title: "Dataset: WormNeuroAtlas" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)** for neuronal connectivity.   Reader: WormNeuroAtlasReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Raw_Chemical.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Raw_Electrical.json" } - ``` - - -### Neurons (herm) (298) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (4) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AWCL - | AWCR - | CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/WormNeuroAtlas_data_graph.md b/docs/WormNeuroAtlas_data_graph.md deleted file mode 100644 index 0fc4eea29..000000000 --- a/docs/WormNeuroAtlas_data_graph.md +++ /dev/null @@ -1,354 +0,0 @@ ---- -title: "Dataset: WormNeuroAtlas" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)** for neuronal connectivity.   Reader: WormNeuroAtlasReader

- -=== "Chemical" - - ```plotly - { "file_path": "./assets/WormNeuroAtlas_Raw_Chemical_graph.json" } - ``` - -=== "Electrical" - - ```plotly - { "file_path": "./assets/WormNeuroAtlas_Raw_Electrical_graph.json" } - ``` - - -### Neurons (herm) (298) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (4) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AWCL - | AWCR - | CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0) diff --git a/docs/WormNeuroAtlas_data_hiveplot.md b/docs/WormNeuroAtlas_data_hiveplot.md deleted file mode 100644 index 87b739c9f..000000000 --- a/docs/WormNeuroAtlas_data_hiveplot.md +++ /dev/null @@ -1,356 +0,0 @@ ---- -title: "Dataset: WormNeuroAtlas" -search: - exclude: true ---- - - -!!! example inline "Choose Dataset" - - White_A White_L4 White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Test SSData UpdSSData UpdSSData2 - -!!! tip "Choose View" - - Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - - - All of the cells present in the original connectome dataset - -!!! abstract "Choose Graph type" - - Graph - Matrix - Hive plot - - -

-Dataset taken from Randi et al. 2023 -

Data from the **[WormNeuroAtlas package](https://github.com/francescorandi/wormneuroatlas)** for neuronal connectivity.   Reader: WormNeuroAtlasReader

- -=== "Chemical" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Raw_Chemical_hiveplot.json" } - ``` - -=== "Electrical" - -
- ```plotly - { "file_path": "./assets/WormNeuroAtlas_Raw_Electrical_hiveplot.json" } - ``` - - -### Neurons (herm) (298) -
Full list of Neurons (hermaphrodite only) in this dataset -ADAL - | ADAR - | ADEL - | ADER - | ADFL - | ADFR - | ADLL - | ADLR - | AFDL - | AFDR - | AIAL - | AIAR - | AIBL - | AIBR - | AIML - | AIMR - | AINL - | AINR - | AIYL - | AIYR - | AIZL - | AIZR - | ALA - | ALML - | ALMR - | ALNL - | ALNR - | AQR - | AS1 - | AS10 - | AS11 - | AS2 - | AS3 - | AS4 - | AS5 - | AS6 - | AS7 - | AS8 - | AS9 - | ASEL - | ASER - | ASGL - | ASGR - | ASHL - | ASHR - | ASIL - | ASIR - | ASJL - | ASJR - | ASKL - | ASKR - | AUAL - | AUAR - | AVAL - | AVAR - | AVBL - | AVBR - | AVDL - | AVDR - | AVEL - | AVER - | AVFL - | AVFR - | AVG - | AVHL - | AVHR - | AVJL - | AVJR - | AVKL - | AVKR - | AVL - | AVM - | AWAL - | AWAR - | AWBL - | AWBR - | BAGL - | BAGR - | BDUL - | BDUR - | CEPDL - | CEPDR - | CEPVL - | CEPVR - | DA1 - | DA2 - | DA3 - | DA4 - | DA5 - | DA6 - | DA7 - | DA8 - | DA9 - | DB1 - | DB2 - | DB3 - | DB4 - | DB5 - | DB6 - | DB7 - | DD1 - | DD2 - | DD3 - | DD4 - | DD5 - | DD6 - | DVA - | DVB - | DVC - | FLPL - | FLPR - | HSNL - | HSNR - | I1L - | I1R - | I2L - | I2R - | I3 - | I4 - | I5 - | I6 - | IL1DL - | IL1DR - | IL1L - | IL1R - | IL1VL - | IL1VR - | IL2DL - | IL2DR - | IL2L - | IL2R - | IL2VL - | IL2VR - | LUAL - | LUAR - | M1 - | M2L - | M2R - | M3L - | M3R - | M4 - | M5 - | MCL - | MCR - | MI - | NSML - | NSMR - | OLLL - | OLLR - | OLQDL - | OLQDR - | OLQVL - | OLQVR - | PDA - | PDB - | PDEL - | PDER - | PHAL - | PHAR - | PHBL - | PHBR - | PHCL - | PHCR - | PLML - | PLMR - | PLNL - | PLNR - | PQR - | PVCL - | PVCR - | PVDL - | PVDR - | PVM - | PVNL - | PVNR - | PVPL - | PVPR - | PVQL - | PVQR - | PVR - | PVT - | PVWL - | PVWR - | RIAL - | RIAR - | RIBL - | RIBR - | RICL - | RICR - | RID - | RIFL - | RIFR - | RIGL - | RIGR - | RIH - | RIML - | RIMR - | RIPL - | RIPR - | RIR - | RIS - | RIVL - | RIVR - | RMDDL - | RMDDR - | RMDL - | RMDR - | RMDVL - | RMDVR - | RMED - | RMEL - | RMER - | RMEV - | RMFL - | RMFR - | RMGL - | RMGR - | RMHL - | RMHR - | SAADL - | SAADR - | SAAVL - | SAAVR - | SABD - | SABVL - | SABVR - | SDQL - | SDQR - | SIADL - | SIADR - | SIAVL - | SIAVR - | SIBDL - | SIBDR - | SIBVL - | SIBVR - | SMBDL - | SMBDR - | SMBVL - | SMBVR - | SMDDL - | SMDDR - | SMDVL - | SMDVR - | URADL - | URADR - | URAVL - | URAVR - | URBL - | URBR - | URXL - | URXR - | URYDL - | URYDR - | URYVL - | URYVR - | VA1 - | VA10 - | VA11 - | VA12 - | VA2 - | VA3 - | VA4 - | VA5 - | VA6 - | VA7 - | VA8 - | VA9 - | VB1 - | VB10 - | VB11 - | VB2 - | VB3 - | VB4 - | VB5 - | VB6 - | VB7 - | VB8 - | VB9 - | VC1 - | VC2 - | VC3 - | VC4 - | VC5 - | VC6 - | VD1 - | VD10 - | VD11 - | VD12 - | VD13 - | VD2 - | VD3 - | VD4 - | VD5 - | VD6 - | VD7 - | VD8 - | VD9 - -
- -### Missing neurons (4) -
Full list of Missing neurons (known hermaphrodite neurons not present) -AWCL - | AWCR - | CANL - | CANR - -
- -### Muscles (0) - -### Other cells (0)