setup.cfg
setup.py
GCAP.egg-info/PKG-INFO
GCAP.egg-info/SOURCES.txt
GCAP.egg-info/dependency_links.txt
GCAP.egg-info/top_level.txt
gcap/GCAP
gcap/__init__.py
gcap/funcs/__init__.py
gcap/funcs/config.py
gcap/funcs/fragment.py
gcap/funcs/helpers.py
gcap/funcs/library_complexity.py
gcap/funcs/mapping.py
gcap/funcs/nsc_rsc.py
gcap/funcs/pdf_report.py
gcap/funcs/peaks_calling.py
gcap/funcs/promotor_overlap.py
gcap/funcs/reps_quality.py
gcap/funcs/sampling.py
gcap/funcs/sequence_quality.py
gcap/funcs/union_dhs_overlap.py
gcap/pipeline-scripts/__init__.py
gcap/pipeline-scripts/autosome_uniq_map_bowtie.awk
gcap/pipeline-scripts/autosome_uniq_map_bwa.awk
gcap/pipeline-scripts/batch.py
gcap/pipeline-scripts/bed_duplicates.sh
gcap/pipeline-scripts/data_summary.py
gcap/pipeline-scripts/macs2_spot.sh
gcap/pipeline-scripts/make_bg_bwDHS_twobit.py
gcap/pipeline-scripts/run_10kb_counts
gcap/pipeline-scripts/run_add_peaks_per_hotspot
gcap/pipeline-scripts/run_badspot
gcap/pipeline-scripts/run_both-passes_merge_and_thresh_hotspots
gcap/pipeline-scripts/run_final
gcap/pipeline-scripts/run_generate_random_lib
gcap/pipeline-scripts/run_make_lib
gcap/pipeline-scripts/run_pass1_hotspot
gcap/pipeline-scripts/run_pass1_merge_and_thresh_hotspots
gcap/pipeline-scripts/run_pass2_hotspot
gcap/pipeline-scripts/run_rescore_hotspot_passes
gcap/pipeline-scripts/run_spot
gcap/pipeline-scripts/run_thresh_hot.R
gcap/pipeline-scripts/run_wavelet_peak_finding
gcap/pipeline-scripts/runhotspot
gcap/pipeline-scripts/script-tokenizer.py
gcap/pipeline-scripts/twobit_seqbias.py
gcap/static/GCAP_bam_pe.conf
gcap/static/GCAP_bed_se.conf
gcap/static/GCAP_pe.conf
gcap/static/GCAP_sam_se.conf
gcap/static/GCAP_se.conf
gcap/static/Satellite.hg19.bed
gcap/static/gcap.conf
gcap/static/gcap_template.tex
gcap/static/runall.tokens.txt