nf-core/bcftools/query @ 0.0.0-0c7146d
Summary
Extracts fields from VCF or BCF files and outputs them in user-defined format.
Get started
Add the following snippet to your workflow script to include this module.
include { BCFTOOLS_QUERY } from 'nf-core/bcftools/query'
License
MIT License
Name
|
BCFTOOLS_QUERY |
|---|
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
vcf
file
|
The vcf file to be queried. *.{vcf.gz, vcf}
|
tbi
file
|
The tab index for the VCF file to be inspected. *.tbi
|
regions
file
|
Optionally, restrict the operation to regions listed in this file. |
|---|
targets
file
|
Optionally, restrict the operation to regions listed in this file (doesn't rely upon index files) |
|---|
samples
file
|
Optional, file of sample names to be included or excluded. e.g. 'file.tsv' |
|---|
output
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.${suffix}
file
|
BCFTools query output file |
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 |
|---|---|---|
| query | Extracts fields from VCF or BCF files and outputs them in user-defined format. | http://samtools.github.io/bcftools/bcftools.html |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 18:25:36 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fbcftools%2Fquery/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/bcftools/query/blobs/sha256:1b9d39ac503eda0f4cee4dddf194f220936d8486df6d7048540aa383c88228ed |
| Size | 2.8 KB |
| Checksum | sha256:1b9d39ac503eda0f4cee4dddf194f220936d8486df6d7048540aa383c88228ed |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 18:25:36 (UTC) | 1 | 2.8 KB | - |