modules/cooler_balance

Run matrix balancing on a cool file

cooler/balancecoolercool

https://github.com/nf-core/modules/[...]/modules/nf-core/cooler/balance

Description

Run matrix balancing on a cool file

Input

name:type

description

pattern

`meta`
`:map`

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

`cool`
`:file`

Path to COOL file

*.{cool,mcool}

`resolution`
`:integer`

Resolution

Output

name:type

description

pattern

`cool`

`meta`
`:map`

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

`${prefix}.${extension}`
`:file`

Output COOL file balancing weights

*.cool

`versions_cooler`

`${task.process}`
`:string`

The name of the process

`cooler`
`:string`

The name of the tool

`cooler --version 2>&1 | sed "s/cooler, version //"`
`:eval`

The expression to obtain the version of the tool

Topics

name:type

description

pattern

`versions`

`${task.process}`
`:string`

The name of the process

`cooler`
`:string`

The name of the tool

`cooler --version 2>&1 | sed "s/cooler, version //"`
`:eval`

The expression to obtain the version of the tool

Tools

cooler
BSD-3-Clause

Sparse binary format for genomic interaction matrices

open2c.github.io/cooler cooler.readthedocs.io/en/latest https://github.com/open2c/cooler 10.1093/bioinformatics/btz540

modules/cooler_balance

Description

Input

`meta`
`:map`

`cool`
`:file`

`resolution`
`:integer`

Output

`cool`

`meta`
`:map`

`${prefix}.${extension}`
`:file`

`versions_cooler`

`${task.process}`
`:string`

`cooler`
`:string`

`cooler --version 2>&1 | sed "s/cooler, version //"`
`:eval`

Topics

`versions`

`${task.process}`
`:string`

`cooler`
`:string`

`cooler --version 2>&1 | sed "s/cooler, version //"`
`:eval`

Tools

cooler
BSD-3-Clause

included in

maintainers

get in touch

modules/cooler_balance

Description

Input

meta:map

cool:file

resolution:integer

Output

cool

meta:map

${prefix}.${extension}:file

versions_cooler

${task.process}:string

cooler:string

cooler --version 2>&1 | sed "s/cooler, version //":eval

Topics

versions

${task.process}:string

cooler:string

cooler --version 2>&1 | sed "s/cooler, version //":eval

Tools

cooler BSD-3-Clause

included in

maintainers

get in touch

`meta`
`:map`

`cool`
`:file`

`resolution`
`:integer`

`cool`

`meta`
`:map`

`${prefix}.${extension}`
`:file`

`versions_cooler`

`${task.process}`
`:string`

`cooler`
`:string`

`cooler --version 2>&1 | sed "s/cooler, version //"`
`:eval`

`versions`

`${task.process}`
`:string`

`cooler`
`:string`

`cooler --version 2>&1 | sed "s/cooler, version //"`
`:eval`

cooler
BSD-3-Clause