modules/bedtools_merge

combines overlapping or “book-ended” features in an interval file into a single feature which spans all of the combined features.

bedmergebedtoolsoverlapped bed

https://github.com/nf-core/modules/[...]/modules/nf-core/bedtools/merge

Description

combines overlapping or “book-ended” features in an interval file into a single feature which spans all of the combined features.

Input

name:type

description

pattern

`meta:map`

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

`bed:file`

Input BED file

*.{bed}

Output

name:type

description

pattern

`bed`

`meta:map`

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

`*.bed:file`

Overlapped bed file with combined features

*.{bed}

`versions`

`versions.yml:file`

File containing software versions

versions.yml

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/merge

modules/bedtools_merge

Description

Input

meta:map

bed:file

Output

bed

meta:map

*.bed:file

versions

versions.yml:file

Tools

bedtools MIT

`meta:map`

`bed:file`

`bed`

`meta:map`

`*.bed:file`

`versions`

`versions.yml:file`

bedtools
MIT