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.gitignore -
README.md -
bin/Modules/Ensembl/ActivityCategorizer.py -
bin/Modules/Ensembl/ActivityTable.py -
bin/Modules/Ensembl/ActivityTableGenerator.py -
bin/Modules/Ensembl/Ensembl.py -
bin/Modules/Ensembl/FTPHandling/FTPEntry.py -
bin/Modules/Ensembl/FTPHandling/URLRetrieve.py -
bin/Modules/Ensembl/FTPHandling/VersionChecker.py -
bin/Modules/Ensembl/FTPHandling/__init__.py -
bin/Modules/Ensembl/GTFGen.py -
bin/Modules/Ensembl/__init__.py -
bin/Modules/Ensembl/checksums.py -
bin/Modules/SaveResults.py -
bin/Modules/Uniquifier.py -
bin/Modules/__init__.py -
bin/Modules/ucsc/__init__.py -
bin/Modules/ucsc/bigBedToBed -
bin/Modules/ucsc/ucsc.py -
bin/RegGTFExtractor.py -
bin/bed_to_fasta.R -
bin/call_peaks.py -
bin/call_peaks.yaml -
bin/cdhit_wrapper.R -
bin/compareBed.sh -
bin/config/celltypes_homo_sapiens.json -
bin/config/celltypes_mus_musculus.json -
bin/get_best_motif.py -
bin/maxScore.R -
bin/merge.R -
bin/reduce_bed.R -
config/cluster.config -
config/create_gtf.config -
config/motif_estimation.config -
config/peak_calling.config -
masterenv.yml -
nextflow.config -
pipeline.nf -
uropa.config