Nextflow Registry | nf-core/bedgovcf@0.0.0-0c7146d

nf-core/bedgovcf @ 0.0.0-0c7146d

Convert a BED file to a VCF file according to a YAML config

bed vcf conversion variants

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @nvnieuwk

Convert a BED file to a VCF file according to a YAML config

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

include { BEDGOVCF } from 'nf-core/bedgovcf'

MIT License

Process

`Name`	`BEDGOVCF`

Input 2 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'test', single_end:false ]`
`bed` file	The BED file to convert to VCF `*.bed`
`config` file	The config file to use for the conversion `*.{yml,yaml}`

#2 tuple

`meta2` map	Groovy Map containing fasta index information e.g. `[ id:'test', single_end:false ]`
`fai` file	The fasta index file `*.fai`

Output 3 channels

#1 vcf tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'test', single_end:false ]`
`*.vcf.gz` file	The converted VCF file `*.vcf.gz`

#2 versions_bgzip tuple

`${task.process}` string	The process name
`bgzip` string	The tool name
`bgzip --version \| head -1 \| sed "s/bgzip (htslib) //"` eval	The expression to obtain the version of the tool

#3 versions_bedgovcf tuple

`${task.process}` string	The process name
`bedgovcf` string	The tool name
`bedgovcf --version 2>&1 \| sed 's/^bedgovcf version //'` eval	The tool version

Tool	Description	Homepage
bedgovcf	A simple tool to convert BED files to VCF files	https://github.com/nvnieuwk/bedgovcf

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:25:57 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fbedgovcf/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/bedgovcf/blobs/sha256:81df68d1be7161edba1734842f3c298803ef2e8eacd557f6076d5fab40a74935
Size	2.5 KB
Checksum	sha256:81df68d1be7161edba1734842f3c298803ef2e8eacd557f6076d5fab40a74935
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:25:57 (UTC)		1	2.5 KB	-