modules/bedtools_slop

Adds a specified number of bases in each direction (unique values may be specified for either -l or -r)

bedslopBedbedtools

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

Description

Adds a specified number of bases in each direction (unique values may be specified for either -l or -r)

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}

`sizes{:bash}`
`:file`

Chromosome sizes file

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`

Slopped BED file

*.{bed}

`versions{:bash}`

`versions.yml{:bash}`
`: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/slop

modules/bedtools_slop

Description

Input

`meta{:bash}`
`:map`

`bed{:bash}`
`:file`

`sizes{:bash}`
`:file`

Output

`bed{:bash}`

`meta{:bash}`
`:map`

`*.bed{:bash}`
`:file`

`versions{:bash}`

`versions.yml{:bash}`
`:file`

Tools

bedtools
MIT

included in

maintainers

get in touch

modules/bedtools_slop

Description

Input

meta{:bash}:map

bed{:bash}:file

sizes{:bash}:file

Output

bed{:bash}

meta{:bash}:map

*.bed{:bash}:file

versions{:bash}

versions.yml{:bash}:file

Tools

bedtools MIT

included in

maintainers

get in touch

`meta{:bash}`
`:map`

`bed{:bash}`
`:file`

`sizes{:bash}`
`:file`

`bed{:bash}`

`meta{:bash}`
`:map`

`*.bed{:bash}`
`:file`

`versions{:bash}`

`versions.yml{:bash}`
`:file`

bedtools
MIT