Nextflow Registry | nf-core/bcftools/annotate@0.0.0-0c7146d

nf-core/bcftools/annotate @ 0.0.0-0c7146d

Add or remove annotations.

bcftools annotate vcf remove add

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @projectoriented @ramprasadn

Maintainers: @projectoriented @ramprasadn

Add or remove annotations.

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

include { BCFTOOLS_ANNOTATE } from 'nf-core/bcftools/annotate'

MIT License

Process

`Name`	`BCFTOOLS_ANNOTATE`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`input` file	Query VCF or BCF file, can be either uncompressed or compressed
`index` file	Index of the query VCF or BCF file
`annotations` file	Bgzip-compressed file with annotations
`annotations_index` file	Index of the annotations file
`columns` file	List of columns in the annotations file, one name per row
`header_lines` file	Contains lines to append to the output VCF header
`rename_chrs` file	Rename annotations according to this file containing "old_name new_name\n" pairs separated by whitespaces, each on a separate line.

Output 4 channels

#1 csi tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`${prefix}.${extension}.csi` file	Default VCF file index `*.csi`

#2 tbi tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`${prefix}.${extension}.tbi` file	Alternative VCF file index `*.tbi`

#3 vcf tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`${prefix}.${extension}` file	Compressed annotated VCF file `*{vcf,vcf.gz,bcf,bcf.gz}`

#4 versions_bcftools tuple

`${task.process}` string	The process the versions were collected from
`bcftools` string	The tool name
`bcftools --version \| sed '1!d; s/^.*bcftools //'` string	The command used to generate the version of the tool

Tool	Description	Homepage
annotate	Add or remove annotations.	http://samtools.github.io/bcftools/bcftools.html

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:24:57 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fbcftools%2Fannotate/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/bcftools/annotate/blobs/sha256:5a1d2f166c906a8e612de6042d0821394451173424509221744c81ea6bd4173f
Size	4.1 KB
Checksum	sha256:5a1d2f166c906a8e612de6042d0821394451173424509221744c81ea6bd4173f
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:24:57 (UTC)		1	4.1 KB	-