subworkflows/bam_qc_picard

Groovy Map containing sample information
e.g. [ id:‘test’, single_end

BAM/CRAM/SAM file

BAM/CRAM/SAM file index

An interval list or bed file that contains the locations of the baits used.

An interval list or bed file that contains the locations of the targets.

Groovy Map containing reference information
e.g. [ id:‘genome’ ]

Reference fasta file

Groovy Map containing reference information
e.g. [ id:‘genome’ ]

Reference fasta file index

Groovy Map containing reference information
e.g. [ id:‘genome’ ]

Reference fasta sequence dictionary