Locate and tag duplicate reads in a BAM file
meta:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end
bam:file
BAM/CRAM file
*.{bam,cram}
bam
*.bam:file
BAM file with duplicate reads marked/removed
*.{bam}
metrics
*.metrics.txt:file
Duplicate metrics file generated by biobambam
*.{metrics.txt}
versions
versions.yml:file
File containing software versions
versions.yml
biobambam is a set of tools for early stage alignment file processing.