Runs the Clippy CLIP peak caller
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
bed
:file
BED file of crosslinks
*.{bed,bed.gz}
gtf
A GTF file of genes to call peaks on
*.{gtf}
fai
FAI file corresponding to the reference sequence
*.{fai}
peaks
Groovy Map containing sample information
*_Peaks.bed
BED file of peaks called by Clippy
*_broadPeaks.bed.gz
summits
*_Summits.bed
BED file of peak summits called by Clippy
*[0-9].bed.gz
intergenic_gtf
*_intergenic_regions.gtf
GTF file of intergenic regions
versions_clippy
${task.process}
:string
The name of the process
clippy
The name of the tool
clippy -v
:eval
The expression to obtain the version of the tool
versions
An intuitive and interactive peak caller for CLIP data
