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 | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 08 Apr 2026 18:46:18 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fbcftools%2Fquery/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/bcftools/query/blobs/sha256:61cf93c00882cb0005002e147fb66382bd6defbfccb1f9bfca1c7ae7e7de6309 |
| Size | 2.8 KB |
| Checksum | sha256:61cf93c00882cb0005002e147fb66382bd6defbfccb1f9bfca1c7ae7e7de6309 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:05:13 (UTC) | 4 | 2.8 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 18:46:18 (UTC) | 3 | 2.8 KB |