Nextflow Registry | nf-core/snpsift/annmem@0.0.0-6c4ed3a

nf-core/snpsift/annmem @ 0.0.0-6c4ed3a

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: 0.0.0-6c4ed3a

Total downloads: 7

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	0.0.0-6c4ed3a
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	23 Apr 2026 15:46:42 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fsnpsift%2Fannmem/0.0.0-6c4ed3a/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/snpsift/annmem/blobs/sha256:0bd572df57fc25e5dd2eb12a9c6ab2d769f3a71c4d97f0693a754ca13f7e9552
Size	3.3 KB
Checksum	sha256:0bd572df57fc25e5dd2eb12a9c6ab2d769f3a71c4d97f0693a754ca13f7e9552
Downloads	3

Version	Date	Status	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:46:42 (UTC)		3	3.3 KB
0.0.0-0c7146d	08 Apr 2026 19:39:29 (UTC)		4	3.3 KB