CHANGES.txt
LICENSE.txt
MANIFEST.in
README.md
README.txt
setup.py
bin/bamCompare
bin/bamCorrelate
bin/bamCoverage
bin/bamFingerprint
bin/bamPEFragmentSize
bin/bigwigCompare
bin/bigwigCorrelate
bin/computeGCBias
bin/computeMatrix
bin/correctGCBias
bin/estimateScaleFactor
bin/heatmapper
bin/profiler
deepTools.egg-info/PKG-INFO
deepTools.egg-info/SOURCES.txt
deepTools.egg-info/dependency_links.txt
deepTools.egg-info/requires.txt
deepTools.egg-info/top_level.txt
deeptools/SES_scaleFactor.py
deeptools/__init__.py
deeptools/_version.py
deeptools/bamHandler.py
deeptools/bamPEFragmentSize.py
deeptools/compareSignal.py
deeptools/config.py
deeptools/correctReadCounts.py
deeptools/countReadsPerBin.py
deeptools/getRatio.py
deeptools/getScorePerBigWigBin.py
deeptools/heatmapper.py
deeptools/mapReduce.py
deeptools/mapReduce_bed_test.py
deeptools/parserCommon.py
deeptools/utilities.py
deeptools/writeBedGraph.py
deeptools/writeBedGraph_bam_and_bw.py
deeptools/config/deeptools.cfg
deeptools/test/__init__.py
docs/manual/deepTools_manual.aux
docs/manual/deepTools_manual.log
docs/manual/deepTools_manual.pdf
docs/manual/deepTools_manual.tex
docs/manual/deepTools_manual.tex~
docs/manual/deepTools_manual.toc
docs/manual/deeptools_summary.pdf
docs/manual/deeptools_summary.rst
examples/GC_bias_simulated_reads_2L.png
examples/GC_bias_simulated_reads_2L_small.png
examples/GalHow_bamCompare.png
examples/GalHow_bamCorrelate.png
examples/GalHow_bamCoverage.png
examples/GalHow_bamFingerprint.png
examples/GalHow_clustHM01.png
examples/GalHow_clustHM02.png
examples/GalHow_clustHM03.png
examples/GalHow_computeGCbias.png
examples/GalHow_correctGCbias.png
examples/GalHow_profiles_XvsA.png
examples/GalHow_profiles_XvsA02.png
examples/GalHow_wf01.png
examples/GalHow_wf02.png
examples/Gal_DataLib.png
examples/Gal_DataLib02.png
examples/Gal_DataUpload.png
examples/Gal_FAQ_IGV.png
examples/Gal_FAQ_IGV_dataset.png
examples/Gal_FAQ_UCSC01.png
examples/Gal_FAQ_UCSC02.png
examples/Gal_FAQ_UCSC_dataset.png
examples/Gal_UCSC.png
examples/Gal_VideoDescription.pdf
examples/Gal_biomart.png
examples/Gal_clustHM_computeMatrix.png
examples/Gal_clustHM_heatmapper.png
examples/Gal_filezilla.png
examples/Gal_historyReload.png
examples/Gal_peaksVsBigWigs.png
examples/Gal_screenshot_dataSet.png
examples/Gal_screenshot_dataSetStates.png
examples/Gal_startsite.png
examples/Gal_startsite_with_comments.png
examples/Gal_workflow.png
examples/Galaxy_panel14.png
examples/Galaxy_panel_tools.png
examples/QC_GCplots_input.png
examples/QC_GCregionexclusion_UCSCscreenshot.png
examples/QC_bamCorrelate_RNAseq.png
examples/QC_bamCorrelate_RNAseq_small.png
examples/QC_bamCorrelate_RoadmapData.png
examples/QC_bamCorrelate_RoadmapData_small.png
examples/QC_bamCorrelate_humanSamples.png
examples/QC_bamCorrelate_intro.png
examples/QC_fingerprint.png
examples/QC_fingerprint_02.png
examples/TableToolOverview.png
examples/collage.png
examples/collage_wout_header.png
examples/flowChart_BAMtoBIGWIG.png
examples/flowChart_BAMtoBIGWIG_small.png
examples/flowChart_FileFormats.png
examples/flowChart_FileFormats_small.png
examples/flowChart_NGSdataProcessing.jpg
examples/flowChart_computeMatrixetc.png
examples/heatmaps.png
examples/heatmaps_kmeans_Pol_II.png
examples/heatmaps_kmeans_Pol_II_small.png
examples/norm_IGVsnapshot_indFiles.png
examples/norm_bamCompare.png
examples/norm_bamCompare_Gal.png
examples/norm_bamCoverage.png
examples/technical_command.png
examples/visual_computeMatrix01.png
examples/visual_computeMatrix03.png
examples/visual_heatmapper.png
examples/visual_hm_DmelPolII.png
examples/visual_hm_DmelPolII_small.png
examples/visual_profiler_DmelPolII.png
examples/visual_profiler_Gal.png
galaxy/bamCompare.xml
galaxy/bamCorrelate.xml
galaxy/bamCoverage.xml
galaxy/bamFingerprint.xml
galaxy/bigwigCompare.xml
galaxy/computeGCBias.xml
galaxy/computeMatrix.xml
galaxy/correctGCBias.xml
galaxy/heatmapper.xml
galaxy/profiler.xml
galaxy/tool_dependencies.xml
galaxy/tool-data/deepTools_seqs.loc.sample
scripts/mappabilityBigWig_to_unmappableBed.sh
scripts/split_bed_into_multiple_files.py
scripts/split_bed_into_multiple_files.py~