Produces comprehensive statistics from SAM/BAM/CRAM file
ch_bam_bai
The input channel containing the BAM/CRAM and it’s index Structure: [ val(meta), path(bam), path(bai) ]
ch_fasta
Reference genome fasta file Structure: [ path(fasta) ]
stats
File containing samtools stats output Structure: [ val(meta), path(stats) ]
flagstat
File containing samtools flagstat output Structure: [ val(meta), path(flagstat) ]
idxstats
File containing samtools idxstats output Structure: [ val(meta), path(idxstats)]
versions
Files containing software versions Structure: [ path(versions.yml) ]
