diff --git a/mouse/Snakefile b/mouse/Snakefile index 1b697b389563210938e8c814811edd85b36d8165..ac9da71ac46fed830e9a416215292e27f8c278ee 100644 --- a/mouse/Snakefile +++ b/mouse/Snakefile @@ -536,14 +536,13 @@ rule bamToBed: shell: "samtools sort -n {input} | bedtools bamtobed -i - > {output}" - # ## Fraction of reads in peaks rule frip: input: bed = "results/bwa/{case}_{stage}_{mark}_q30.sorted.dedup.bed", peak = "results/macs2/{case}_vs_{control}_{stage}_{mark}_macs2_peaks.narrowPeak" output: - "results/frip/{case}_vs_{control}_{stage}_{mark}.frip.txt" + "results/qc/{case}_vs_{control}_{stage}_{mark}.frip.txt" shell: "python2.7 scripts/encode_frip.py {input.bed} {input.peak} > {output}"