Computes the coverage of different regions from the bam file.
meta:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
input:file
BAM/CRAM file
*.{bam,cram}
meta2:map
Groovy Map containing reference information e.g. [ id:‘genome’ ]
fasta:file
Reference genome file. Only needed when passing in CRAM instead of BAM. If not using CRAM, please pass an empty file instead.
*.fasta
cov
*.bed:file
The coverage of different regions in bed format. Optional.
*.bed
wig
*.wig:file
The coverage of different regions in WIG format. Optional.
*.wig
versions
versions.yml:file
File containing software versions
versions.yml
TIDDIT - structural variant calling.
