Description

A program to convert bam into paf.

Input

name:type
description
pattern

meta

:map

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

bam

:file

An input bam file to be converted into paf.

Output

name:type
description
pattern

paf

meta

:map

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

versions_samtools

${task.process}

:string

Name of the process

samtools

:string

Name of the tool

samtools version | sed '1!d;s/.* //'

:eval

The expression to obtain the version of the tool

versions_paftools

${task.process}

:string

Name of the process

paftools

:string

Name of the tool

paftools.js version

:eval

The expression to obtain the version of the tool

Topics

name:type
description
pattern

versions

${task.process}

:string

Name of the process

paftools

:string

Name of the tool

paftools.js version

:eval

The expression to obtain the version of the tool

${task.process}

:string

Name of the process

samtools

:string

Name of the tool

samtools version | sed '1!d;s/.* //'

:eval

The expression to obtain the version of the tool

Tools

paftools
MIT

A program to manipulate paf files / convert to and from paf.