Name		Name	Last commit message	Last commit date
Latest commit History 91 Commits
Notebook_Archive		Notebook_Archive
Submission1_notebooks		Submission1_notebooks
motif		motif
screen-heatmap		screen-heatmap
.gitignore		.gitignore
BuildPairwise_CTCF_across_TSS.ipynb		BuildPairwise_CTCF_across_TSS.ipynb
BuildTSS-TTS-interactions.ipynb		BuildTSS-TTS-interactions.ipynb
Building_pairwise_interactions_BEDPE_PromoterEnhancer_For_RescaledPileups.ipynb		Building_pairwise_interactions_BEDPE_PromoterEnhancer_For_RescaledPileups.ipynb
CallingCompartments_and_Insulation.ipynb		CallingCompartments_and_Insulation.ipynb
ChIP-locations.txt		ChIP-locations.txt
Example_Heatmap_GenTrack_with_DDXTAF_change.ipynb		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-NSMB-Review-extraPolII.ipynb
Figure2B-Across_the_gene-HAP1-HCT116-common.ipynb		Figure2B-Across_the_gene-HAP1-HCT116-common.ipynb
Figure5-rescaled-gene-and-coolpups_mutants.ipynb		Figure5-rescaled-gene-and-coolpups_mutants.ipynb
Generate-active-TSS-common-HAP1-HCT116-useH3K4.ipynb		Generate-active-TSS-common-HAP1-HCT116-useH3K4.ipynb
Generate-common-TSS-TTS-HCT116_HAP1_step2.ipynb		Generate-common-TSS-TTS-HCT116_HAP1_step2.ipynb
LICENSE		LICENSE
ORIGINAL_Rescaled_pileups_BEDPE_PE-CTCF-SHADOW.ipynb		ORIGINAL_Rescaled_pileups_BEDPE_PE-CTCF-SHADOW.ipynb
README-ChIP-seq.txt		README-ChIP-seq.txt
README-Hi-C.txt		README-Hi-C.txt
README-shadow.txt		README-shadow.txt
README.md		README.md
README.txt		README.txt
Rescaled_EP_pileups_considering_CTCF_orientation.ipynb		Rescaled_EP_pileups_considering_CTCF_orientation.ipynb
Rescaled_pileups_BEDPE_PE-CTCF-SHADOW.ipynb		Rescaled_pileups_BEDPE_PE-CTCF-SHADOW.ipynb
cooler-bash.sh		cooler-bash.sh
exonU.py		exonU.py
geo-datasets		geo-datasets
samples.py		samples.py
stackups-Figure1.ipynb		stackups-Figure1.ipynb
stackups-Figure2A-testing.ipynb		stackups-Figure2A-testing.ipynb
stackups-Figure2A.ipynb		stackups-Figure2A.ipynb
stackups-Figure4-quantify-DDX-TAF.ipynb		stackups-Figure4-quantify-DDX-TAF.ipynb
stackups-SuppFigure1.ipynb		stackups-SuppFigure1.ipynb
stackups-SuppFigure1L.ipynb		stackups-SuppFigure1L.ipynb
stackups-SuppFigure2C_HAP1_HCT116.ipynb		stackups-SuppFigure2C_HAP1_HCT116.ipynb
stackups-SuppFigure4G_and_H.ipynb		stackups-SuppFigure4G_and_H.ipynb
stackups-explore-NovemberChipData.ipynb		stackups-explore-NovemberChipData.ipynb
supp_lib.py		supp_lib.py

Repository files navigation

ALV-repo

Scripts and notebooks for ALV's publication

License

dekkerlab/ALV-repo

Folders and files

Latest commit

History

Repository files navigation

ALV-repo

About

Resources

License

Stars

Watchers

Forks

Languages