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How to create model using a user input template.pdb file
question
Further information is requested
#292
opened Oct 29, 2024 by
Mayjig
setting the anchor points to '0,8' does not lead to an exception
Warning/Exception needed
The code should return a warning or exception to make something clearer for the user
#280
opened Oct 11, 2024 by
cbaakman
Add test for database automatic fetching from zenodo
Code quality
#276
opened Oct 8, 2024 by
DarioMarzella
Conda installation failing due to ERROR 404 missing current_repodata.json
Installation
wontfix
This will not be worked on
#273
opened Oct 7, 2024 by
DarioMarzella
Add M_chain_seq and N_chain_seq arguments for command line commands
enhancement
New feature or request
#256
opened Feb 28, 2024 by
DarioMarzella
Add PANDORA v2.0 publication reference to README
documentation
Improvements or additions to documentation
#255
opened Feb 28, 2024 by
DarioMarzella
Use MHC sequence for netmhcpan prediction instead of allele name
enhancement
New feature or request
#254
opened Feb 28, 2024 by
DarioMarzella
Adapt pytest so the CI run does not fail if IMGT.org is not available
#245
opened Jun 28, 2023 by
DarioMarzella
the users should not be allowed to enter both MHC allele name and MHC sequence
#243
opened Apr 13, 2023 by
LilySnow
pdb files created by PANDORA do not have a properly formatted HEADER
enhancement
New feature or request
#242
opened Mar 30, 2023 by
DaniBodor
Redundant align_peptides functions between Align.py and Modelling_functions.py
Code quality
#234
opened Mar 2, 2023 by
DarioMarzella
PANDORA does not stop when no anchors are found
Warning/Exception needed
The code should return a warning or exception to make something clearer for the user
#230
opened Jan 27, 2023 by
LarsM14
Add warning in case users input both allele name and sequence
Code quality
#219
opened Oct 31, 2022 by
DarioMarzella
Allele name too long cause netMHCpan anchor prediction to crash
bug
Something isn't working
#207
opened Oct 14, 2022 by
DarioMarzella
Convert Pandora.Pandora, Pandora.model and Wrapper arguments to **kwargs
enhancement
New feature or request
#176
opened Sep 6, 2022 by
DarioMarzella
change the class name Pandora to class case
enhancement
New feature or request
#173
opened Sep 2, 2022 by
LilySnow
Still some PDBs do not have any allele assigned to it
benchmark
bug
Something isn't working
p:MHC II
paper
#155
opened Jul 26, 2022 by
FarzanehParizi
Renumbering the templates before calculating the anchors leads to wrong anchor calculation
bug
Something isn't working
#146
opened Jul 5, 2022 by
DarioMarzella
Some cases produce only 19 models
bug
Something isn't working
#139
opened Jun 15, 2022 by
DarioMarzella
Template parsing failing due to missing REMARK 410 section
data_issue
Templates and other reference data issues
enhancement
New feature or request
#126
opened Apr 19, 2022 by
DarioMarzella
Multiple organisms alleles are missign from reference MHC sequences and IMGT-3D
data_issue
Templates and other reference data issues
enhancement
New feature or request
#97
opened Sep 2, 2021 by
DarioMarzella
some comments about pandora code
Code quality
enhancement
New feature or request
#91
opened Jul 30, 2021 by
LilySnow
Add option to cluster the models and rank the clusters.
enhancement
New feature or request
#31
opened Feb 27, 2021 by
DarioMarzella
Target neoantigen peptide anchor selection
enhancement
New feature or request
#20
opened Dec 10, 2020 by
DarioMarzella
ProTip!
Follow long discussions with comments:>50.