Nextflow Registry | nf-core/agat/convertgff2bed@0.0.0-0c7146d

nf-core/agat/convertgff2bed @ 0.0.0-0c7146d

Takes a GFF3 file and converts to a bed12 file

genome bed gff conversion

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @atrigila

Maintainers: @atrigila

Takes a GFF3 file and converts to a bed12 file

Add the following snippet to your workflow script to include this module.

include { AGAT_CONVERTGFF2BED } from 'nf-core/agat/convertgff2bed'

MIT License

Process

`Name`	`AGAT_CONVERTGFF2BED`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`gff` file	Input GFF3 file `*.{gff}`

Output 2 channels

#1 bed tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*.bed` file	Output bed12 file `*.bed`

#2 versions_agat tuple

`${task.process}` string	The name of the process
`agat` string	The name of the tool
`agat --version \| sed 's/v//'` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
agat	Another Gff Analysis Toolkit (AGAT). Suite of tools to handle gene annotations in any GTF/GFF format.	https://agat.readthedocs.io/en/latest/

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:21:08 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fagat%2Fconvertgff2bed/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/agat/convertgff2bed/blobs/sha256:51fd86b34bf7c93e80b55dfda381849760f85b0b0bb60de6e8d50f38994b5359
Size	2.2 KB
Checksum	sha256:51fd86b34bf7c93e80b55dfda381849760f85b0b0bb60de6e8d50f38994b5359
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:21:08 (UTC)		1	2.2 KB	-