modules/pairtools_split

Split a .pairsam file into .pairs and .sam.

splitpairsbam

https://github.com/nf-core/modules/[...]/modules/nf-core/pairtools/split

Description

Split a .pairsam file into .pairs and .sam.

Input

name:type

description

pattern

`meta`
`:map`

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

`pairs`
`:file`

pairsam file

Output

name:type

description

pattern

`pairs`

`meta`
`:map`

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

`*.split.pairs.gz`
`:file`

Duplicates removed pairs

*.{pairs.gz}

`bam`

`meta`
`:map`

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

`*.bam`
`:file`

Output BAM file

*.bam

`versions_pairtools`

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

The name of the process

`pairtools`
`:string`

The name of the tool

`pairtools --version | sed 's/.pairtools.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

`pairtools`
`:string`

The name of the tool

`pairtools --version | sed 's/.pairtools.version //'`
`:eval`

The expression to obtain the version of the tool

Tools

pairtools
MIT

CLI tools to process mapped Hi-C data

http://pairtools.readthedocs.io https://github.com/mirnylab/pairtools

modules/pairtools_split

Description

Input

`meta`
`:map`

`pairs`
`:file`

Output

`pairs`

`meta`
`:map`

`*.split.pairs.gz`
`:file`

`bam`

`meta`
`:map`

`*.bam`
`:file`

`versions_pairtools`

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

`pairtools`
`:string`

`pairtools --version | sed 's/.pairtools.version //'`
`:eval`

Topics

`versions`

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

`pairtools`
`:string`

`pairtools --version | sed 's/.pairtools.version //'`
`:eval`

Tools

pairtools
MIT

maintainer

get in touch

modules/pairtools_split

Description

Input

meta:map

pairs:file

Output

pairs

meta:map

*.split.pairs.gz:file

bam

meta:map

*.bam:file

versions_pairtools

${task.process}:string

pairtools:string

pairtools --version | sed 's/.*pairtools.*version //':eval

Topics

versions

${task.process}:string

pairtools:string

pairtools --version | sed 's/.*pairtools.*version //':eval

Tools

pairtools MIT

maintainer

get in touch

`meta`
`:map`

`pairs`
`:file`

`pairs`

`meta`
`:map`

`*.split.pairs.gz`
`:file`

`bam`

`meta`
`:map`

`*.bam`
`:file`

`versions_pairtools`

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

`pairtools`
`:string`

`pairtools --version | sed 's/.pairtools.version //'`
`:eval`

`versions`

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

`pairtools`
`:string`

`pairtools --version | sed 's/.pairtools.version //'`
`:eval`

pairtools
MIT