ATAC-pipe

Analysis pipeline for ATAC-seq Data

Name		Name	Last commit message	Last commit date
Latest commit History 24 Commits
Data		Data
Fragment_length_ratio.txt		Fragment_length_ratio.txt
Manual_for_ATAC-pipe.pdf		Manual_for_ATAC-pipe.pdf
README.md		README.md
atac-pipe.py		atac-pipe.py
call_binding.py		call_binding.py
chr.sh		chr.sh
condaEnv_atac-pipe.yml		condaEnv_atac-pipe.yml
deseq.r		deseq.r
fragment_ref.txt		fragment_ref.txt
header.sam		header.sam
load_data.py		load_data.py
mscentipede.pxd		mscentipede.pxd
mscentipede.pyx		mscentipede.pyx
mscentipedepy.py		mscentipedepy.py
pyCorrPCA.py		pyCorrPCA.py
pyMappingQC.py		pyMappingQC.py
pyReadCount.py		pyReadCount.py
pySig.py		pySig.py
refDown.py		refDown.py
sam2perbase1bp.pl		sam2perbase1bp.pl
setup.py		setup.py
shift_sam_bases.pl		shift_sam_bases.pl
step1_prepare_data_files.py		step1_prepare_data_files.py
step2_run_centipede.py		step2_run_centipede.py
step3_build_clustermap.py		step3_build_clustermap.py

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