process BEDTOOLS_GENOMECOV { tag {bam} container 'quay.io/biocontainers/bedtools:2.29.2--hc088bd4_0' input: path (bam) path (chrom_sizes) val (bedtools_genomecov_args) output: stdout() script: """ bedtools genomecov -ibam ${bam} -g ${chrom_sizes} ${bedtools_genomecov_args} """ }