Files

Notebook_Archive
Submission1_notebooks
motif
screen-heatmap
.gitignore
BuildPairwise_CTCF_across_TSS.ipynb
BuildTSS-TTS-interactions.ipynb
Building_pairwise_interactions_BEDPE_PromoterEnhancer_For_RescaledPileups.ipynb
CallingCompartments_and_Insulation.ipynb
ChIP-locations.txt
Example_Heatmap_GenTrack_with_DDXTAF_change.ipynb
Figure2B-Across_the_gene-HAP1-HCT116-common-NSMB-Review-extraPolII.ipynb
Figure2B-Across_the_gene-HAP1-HCT116-common.ipynb
Figure5-rescaled-gene-and-coolpups_mutants.ipynb
Generate-active-TSS-common-HAP1-HCT116-useH3K4.ipynb
Generate-common-TSS-TTS-HCT116_HAP1_step2.ipynb
LICENSE
ORIGINAL_Rescaled_pileups_BEDPE_PE-CTCF-SHADOW.ipynb
README-ChIP-seq.txt
README-Hi-C.txt
README-shadow.txt
README.md
README.txt
Rescaled_EP_pileups_considering_CTCF_orientation.ipynb
Rescaled_pileups_BEDPE_PE-CTCF-SHADOW.ipynb
cooler-bash.sh
exonU.py
geo-datasets
samples.py
stackups-Figure1.ipynb
stackups-Figure2A-testing.ipynb
stackups-Figure2A.ipynb
stackups-Figure4-quantify-DDX-TAF.ipynb
stackups-SuppFigure1.ipynb
stackups-SuppFigure1L.ipynb
stackups-SuppFigure2C_HAP1_HCT116.ipynb
stackups-SuppFigure4G_and_H.ipynb
stackups-explore-NovemberChipData.ipynb
supp_lib.py

README.md

Jan 13, 2021

645291a · Jan 13, 2021

ALV-repo

Scripts and notebooks for ALV's publication