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{:bash}

:map

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

bed{:bash}

:file

Input BED file

*.{bed}

summary_col{:bash}

:string

Column to summarize

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

Grouped by bed file with combined features

*.{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 bedtools.readthedocs.io/en/latest/content/tools/groupby 10.1093/bioinformatics/btq033
included in
circrna
maintainer
Github user mashehu
get in touch
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