Nextflow Registry | nf-core/snpsift/annmem@0.0.0-0c7146d

nf-core/snpsift/annmem @ 0.0.0-0c7146d

Annotate VCF files using pre-built SnpSift annMem databases. Enriches input VCF records by querying memory-optimized indexed dataframes for high-performance annotation.

vcf annotation snpsift variant database

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @friederike-hanssen

Maintainers: @friederike-hanssen

Summary

Annotate VCF files using pre-built SnpSift annMem databases. Enriches input VCF records by querying memory-optimized indexed dataframes for high-performance annotation.

Get started

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

include { SNPSIFT_ANNMEM } from 'nf-core/snpsift/annmem'

License

MIT License

Process

`Name`	`SNPSIFT_ANNMEM`

Input 2 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'test' ]`
`vcf` file	VCF file to annotate `*.{vcf,vcf.gz}`
`vcf_tbi` file	Tabix index for input VCF (optional) `*.tbi`

#2 tuple

`db_vcf` file	VCF database file(s) for annotation. Can provide multiple databases for multi-database annotation. `*.{vcf,vcf.gz}`
`db_vcf_tbi` file	Tabix index for database VCF file(s) `*.tbi`
`db_vardb` directory	Pre-built .snpsift.vardb directory (used instead of db_vcf if provided) `*.snpsift.vardb`
`db_fields` list	INFO field names to annotate with. Can be a list or a single string.
`db_prefixes` string	Prefix to add to annotated field names

Output 3 channels

#1 tbi tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'test' ]`
`*.vcf.gz.tbi` file	Tabix index for annotated VCF `*.vcf.gz.tbi`

#2 vcf tuple

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

#3 versions_snpsift tuple

`${task.process}` string	The name of the process
`snpsift` string	The name of the tool
`SnpSift -version 2>&1 \| grep -oE '[0-9]+\.[0-9]+[a-z]?'` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
snpsift	Genetic variant annotations and functional effect prediction toolbox	https://pcingola.github.io/SnpEff/snpsift/annotate_mem/

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:15:25 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fsnpsift%2Fannmem/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/snpsift/annmem/blobs/sha256:adeef59111f65e4dd15084a94a92ff315a802af0eda0d57d817961b63c2d0acb
Size	3.3 KB
Checksum	sha256:adeef59111f65e4dd15084a94a92ff315a802af0eda0d57d817961b63c2d0acb
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 19:15:25 (UTC)		1	3.3 KB	-