Description

Identifies common intervals among multiple (and subsets thereof) sorted BED/GFF/VCF files.

Input

Name (Type)
Description
Pattern

meta (map)

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

]

beds (list)

List of files to be merged

*.{bed,vcf,gff}

chrom_sizes (file)

Chromosome sizes file

*{.sizes,.txt}

Output

Name (Type)
Description
Pattern

meta (map)

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

]

versions (file)

File containing software versions

versions.yml

bed (file)

Common interval bed

*.{bed}
maintainer
Github user matthdsm
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Tools

bedtools
MIT

A set of tools for genomic analysis tasks, specifically enabling genome arithmetic (merge, count, complement) on various file types.

bedtools.readthedocs.io/en/latest/content/tools/multiinter