modules/bedtools_groupby

Groups features in a BED file by given column(s) and computes summary statistics for each group to another column.

bedgroupbybedtools

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

Description

Groups features in a BED file by given column(s) and computes summary statistics for each group to another column.

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}

`summary_col`
`:string`

Column to summarize

Output

name:type

description

pattern

`bed`

`meta`
`:map`

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

`*.bed`
`:file`

Grouped by 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 bedtools.readthedocs.io/en/latest/content/tools/groupby 10.1093/bioinformatics/btq033

modules/bedtools_groupby

Description

Input

`meta`
`:map`

`bed`
`:file`

`summary_col`
`:string`

Output

`bed`

`meta`
`:map`

`*.bed`
`:file`

`versions`

`versions.yml`
`:file`

Tools

bedtools
MIT

included in

maintainer

get in touch

modules/bedtools_groupby

Description

Input

meta:map

bed:file

summary_col:string

Output

bed

meta:map

*.bed:file

versions

versions.yml:file

Tools

bedtools MIT

included in

maintainer

get in touch

`meta`
`:map`

`bed`
`:file`

`summary_col`
`:string`

`bed`

`meta`
`:map`

`*.bed`
`:file`

`versions`

`versions.yml`
`:file`

bedtools
MIT