nf-core/plink2/extract @ 0.0.0-6c4ed3a
Summary
Subset plink pfiles with a text file of variant identifiers
Get started
Add the following snippet to your workflow script to include this module.
include { PLINK2_EXTRACT } from 'nf-core/plink2/extract'
License
MIT License
Name
|
PLINK2_EXTRACT |
|---|
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
pgen
file
|
PLINK 2 binary genotype table *.{pgen}
|
psam
file
|
PLINK 2 sample information file *.{psam}
|
pvar
file
|
PLINK 2 variant information file *.{pvar}
|
variants
file
|
A text file containing variant identifiers to keep (one per line) *.{keep}
|
versions
versions.yml
file
|
File containing software versions versions.yml
|
|---|
extract_pgen
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.pgen
file
|
PLINK 2 binary genotype table, containing extracted variants *.{pgen}
|
extract_psam
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.psam
file
|
PLINK 2 sample information file associated with the extracted data *.{psam}
|
extract_pvar
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.pvar.zst
file
|
PLINK 2 variant information file, containing extracted variants *.{pvar.zst}
|
| Tool | Description | Homepage |
|---|---|---|
| plink2 | Whole genome association analysis toolset, designed to perform a range of basic, large-scale analyses in a computationally efficient manner | http://www.cog-genomics.org/plink/2.0/ |
| Version | 0.0.0-6c4ed3a |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 23 Apr 2026 15:37:55 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fplink2%2Fextract/0.0.0-6c4ed3a/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/plink2/extract/blobs/sha256:f3c9739c833acca9bb48e80c7e7aabc0d353724eb6b471761b3413d4f20a10c6 |
| Size | 2.9 KB |
| Checksum | sha256:f3c9739c833acca9bb48e80c7e7aabc0d353724eb6b471761b3413d4f20a10c6 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:37:55 (UTC) | 3 | 2.9 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:27:03 (UTC) | 4 | 2.9 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:27:39 (UTC) | 2 | 2.9 KB |