Description

Converts a bam file to a bed12 file.

Input

name:type
description
pattern

meta

:map

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

bam

:file

Input BAM file

*.{bam}

Output

name:type
description
pattern

bed

meta

:map

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

*.bed

:file

Bed file containing genomic intervals.

*.{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.