Runs the Clippy CLIP peak caller
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
bed{:bash}
:file
BED file of crosslinks
*.{bed,bed.gz}
gtf{:bash}
A GTF file of genes to call peaks on
*.{gtf}
fai{:bash}
FAI file corresponding to the reference sequence
*.{fai}
peaks{:bash}
Groovy Map containing sample information
*_Peaks.bed{:bash}
BED file of peaks called by Clippy
*_broadPeaks.bed.gz
summits{:bash}
*_Summits.bed{:bash}
BED file of peak summits called by Clippy
*[0-9].bed.gz
intergenic_gtf{:bash}
*_intergenic_regions.gtf{:bash}
GTF file of intergenic regions
*_intergenic_regions.gtf
versions{:bash}
versions.yml{:bash}
File containing software versions
versions.yml
An intuitive and interactive peak caller for CLIP data
