nf-core/snpsift/annmemcreate @ 0.0.0-0c7146d
Summary
Create memory-optimized SnpSift vardb databases from VCF files for use with SnpSift annMem annotation. Converts VCF files (e.g. ClinVar, dbSNP, Cosmic) into indexed dataframes for fast lookup.
Get started
Add the following snippet to your workflow script to include this module.
include { SNPSIFT_ANNMEMCREATE } from 'nf-core/snpsift/annmemcreate'
License
MIT License
Process
Name
|
SNPSIFT_ANNMEMCREATE |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
db_vcf
file
|
VCF file to build the database from *.{vcf,vcf.gz}
|
db_vcf_tbi
file
|
Tabix index for the database VCF file (optional) *.tbi
|
db_fields
list
|
INFO field names to include in the database. Can be a list or a single string. |
Output
2 channels
#1
database
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
*.snpsift.vardb
directory
|
SnpSift vardb directory containing indexed dataframes *.snpsift.vardb
|
#2
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 19:15:27 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fsnpsift%2Fannmemcreate/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/snpsift/annmemcreate/blobs/sha256:41ad02278b6e8db149e3a6507e2c72fdbd8595221347f4372e2eafe9951d9c4e |
| Size | 2.6 KB |
| Checksum | sha256:41ad02278b6e8db149e3a6507e2c72fdbd8595221347f4372e2eafe9951d9c4e |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 19:15:27 (UTC) | 1 | 2.6 KB | - |