Nextflow Registry | nf-core/custom/addmostsevereconsequence@0.0.0-0c7146d

nf-core/custom/addmostsevereconsequence @ 0.0.0-0c7146d

Annotate a VEP annotated VCF with the most severe consequence field

annotation vep consequence vcf

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @ramprasadn @fellen31

Maintainers: @ramprasadn @fellen31

Annotate a VEP annotated VCF with the most severe consequence field

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

include { CUSTOM_ADDMOSTSEVERECONSEQUENCE } from 'nf-core/custom/addmostsevereconsequence'

MIT License

Process

`Name`	`CUSTOM_ADDMOSTSEVERECONSEQUENCE`

Input 2 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`vcf` file	VEP annotated VCF file `*.{vcf,vcf.gz}`

#2 tuple

`meta2` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`variant_consequences` file	File with VEP variant consequences, one per line. `*`

Output 3 channels

#1 vcf tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`*.vcf.gz` file	Annotated VCF file `*.vcf.gz`

#2 versions_bgzip tuple

`${task.process}` string	The name of the process
`bgzip` string	The name of the tool
`bgzip --version \| sed '1!d;s/.* //'` eval	The expression to obtain the version of the tool

#3 versions_addmostsevereconsequence tuple

`${task.process}` string	The name of the process
`addmostsevereconsequence` string	The name of the tool
`1.2.0` string	The expression to obtain the version of the tool

Tool	Description	Homepage
custom	Custom module to annotate a VEP annotated VCF with the most severe consequence field	n/a

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:33:44 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fcustom%2Faddmostsevereconsequence/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/custom/addmostsevereconsequence/blobs/sha256:04b28d410cacedb12087fb56a6a92794d06dd81d3fced932eeca7216ed48033a
Size	5.0 KB
Checksum	sha256:04b28d410cacedb12087fb56a6a92794d06dd81d3fced932eeca7216ed48033a
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:33:44 (UTC)		1	5.0 KB	-