modules/custom_gtffilter

Filter a gtf file to keep only regions that are located on a chromosome represented in a given fasta file

gtffastafilter

https://github.com/nf-core/modules/[...]/modules/nf-core/custom/gtffilter

Description

Filter a gtf file to keep only regions that are located on a chromosome represented in a given fasta file

Input

name:type

description

pattern

`meta:map`

Groovy Map containing sample information e.g. [ id:'sample1' ]

`gtf:file`

GTF file

*.{gtf}

`meta2:map`

Groovy Map containing sample information e.g. [ id:'sample1' ]

`fasta:file`

Genome fasta file

*.{fasta,fa}

Output

name:type

description

pattern

`gtf`

`meta:map`

Groovy Map containing sample information e.g. [ id:'sample1' ]

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

Filtered GTF file

*.{gtf}

`versions`

`versions.yml:file`

File containing software versions

versions.yml

Tools

gtffilter

Filter a gtf file to keep only regions that are located on a chromosome represented in a given fasta file

https://github.com/nf-core/modules/blob/master/modules/nf-core/custom/gtffilter/main.nf

modules/custom_gtffilter

Description

Input

`meta:map`

`gtf:file`

`meta2:map`

`fasta:file`

Output

`gtf`

`meta:map`

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

`versions`

`versions.yml:file`

Tools

gtffilter

included in

maintainer

get in touch