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.gitignore
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R-package/.Rproj.user
R-package/.Rhistory
.RData
.Ruserdata
R-package/RSeq_out
*.snakemake*
*RSeq.Rproj*
.Rproj.user
.idea
R-package/run_vars.json
RSeq_out*
*.fastq
rlbase-data/rlpipes-out/datadump/
*.bam
.Rsub*
**/rlbase-data/**/*.tsv
!rlbase-data/rlbase_samples.tsv
**/rlbase-data/**/*.csv
*.bb
*.bigNarrowPeak
*.bw
*.bedGraph
venv/
analysis/
*data/rlfs*
bin/RSeq/uploads/
*.Rhistory*
misc-data/**/
*.bed
*.bed.gz
**/quant/**
misc/export
*.pyc
__pycache__/
*.ipynb_checkpoints*
instance/
.pytest_cache/
.coverage
htmlcov/
rseq_out/
*rlregions*.csv
build.log
*.mat.gz
dist/
build/
*.egg-info/
.Rproj.user
*.snakemake
*RSeq/data/rlfs_bed/
*RSeq/data/rlfs/
*RSeq/data/rlfs-beds/
logfile*
misc/conservation_analysis/data/final-peaks-unstranded/
misc/conservation_analysis/data/hg38_10kb-widow_2.5kb-step_tiles.intersected.bed
misc/conservation_analysis/data/hg38_10kb-widow_2.5kb-step_tiles.bed
**/rlregions/**.csv
.DS_Store
**/peaks/*
Prepare-RMapDB-Tables/**/cat_peaks/*
Prepare-RMapDB-Tables/**/peaksFinal/*
Prepare-RMapDB-Tables/**/counts/*
Prepare-RMapDB-Tables/**/windows/*
Prepare-RMapDB-Tables/**/*_files/
Prepare-RMapDB-Tables/**/*_cache/
**/*_cache/
**/*_files/
misc/**/*_cache/
misc/**/*_files/
*.bw
*.bdg
*.bam
*.fastq
*.mat
*.broadPeak
*.npz
*.log
*.narrowPeak
*.sizes
tmp/
*.tar.gz
Prepare-RMapDB-Tables/**/sras/*
Prepare-RMapDB-Tables/**/QC/*
Prepare-RMapDB-Tables/**/salmon_ind/*
Prepare-RMapDB-Tables/**/*.tgz
Prepare-RMapDB-Tables/**/quant/*
Prepare-RMapDB-Tables/**/logs/*
Prepare-RMapDB-Tables/
rlbase-data/**/*.xz
*.rda
*stats.json
*stats.txt
*.html
*.bai
*.bed
*.png
*.pdf