Main caller script for peak calling
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
bams{:bash}
:file
One or more BAM files
*.{bam}
bais{:bash}
Corresponding BAM file indexes
*.bam.bai
assay_type{:bash}
:string
Assay type
divergent_TREs{:bash}
*_divergent_peaks.bed{:bash}
Divergent TREs
*_divergent_peaks.bed
bidirectional_TREs{:bash}
*_bidirectional_peaks.bed{:bash}
Divergent TREs and convergent TREs
*_bidirectional_peaks.bed
unidirectional_TREs{:bash}
*_unidirectional_peaks.bed{:bash}
Unidirectional TREs, maybe lncRNAs transcribed from enhancers (e-lncRNAs)
*_unidirectional_peaks.bed
peakcalling_log{:bash}
peakcalling_*.log{:bash}
Peakcalling log for debugging purposes
peakcalling_*.log
versions{:bash}
versions.yml{:bash}
File containing software versions
versions.yml
Peak Identifier for Nascent Transcripts Starts (PINTS)
