Description

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

Input

name:type
description
pattern

meta{:bash}

:map

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

beds{:bash}

:list

List of files to be merged

*.{bed,vcf,gff}

chrom_sizes{:bash}

:file

Chromosome sizes file

*{.sizes,.txt}

Output

name:type
description
pattern

bed{:bash}

meta{:bash}

:map

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

*.bed{:bash}

:file

Common interval bed

*.{bed}

versions_bedtools{:bash}

${task.process}{:bash}

:string

The name of the process

bedtools{:bash}

:string

The name of the tool

bedtools --version | sed -e 's/bedtools v//g'{:bash}

:eval

The expression to obtain the version of the tool

Topics

name:type
description
pattern

versions{:bash}

${task.process}{:bash}

:string

The name of the process

bedtools{:bash}

:string

The name of the tool

bedtools --version | sed -e 's/bedtools v//g'{:bash}

:eval

The expression to obtain the version of the tool

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
maintainer
Github user matthdsm
get in touch
Ask a question on Slack Open an issue on GitHub