To allow easier implementation of allele-specific sorting into ChIP-seq, RNA-seq or BS-seq pipelines workflows via Nextflow (e.g. our in-house Nextflow pipelines) can we add an option that will only run the allele-tagging process, and then stop at generating the allele_flagged.bam files.
This will allow adding markdup or deduplicate_bismark steps, and then run the tag2sort step at a later point in time.
To allow easier implementation of allele-specific sorting into ChIP-seq, RNA-seq or BS-seq pipelines workflows via Nextflow (e.g. our in-house Nextflow pipelines) can we add an option that will only run the allele-tagging process, and then stop at generating the
allele_flagged.bamfiles.This will allow adding
markdupordeduplicate_bismarksteps, and then run thetag2sortstep at a later point in time.