---
name: "vcf-query"
section: "1"
platform: "linux"
package: "vcftools"
version: "0.1.16-3+b1"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/vcf-query"
---

# vcf-query(1)

query VCF files

## NAME

vcf-query - query VCF files

## SYNOPSIS

**query-vcf** \[*OPTIONS*\] *file.vcf.gz*

## OPTIONS

- **-c**, **--columns** \<NA001,NA002,..\>

  List of comma-separated column names.

- **-f**, **--format** \<string\>

  The default is '%CHROM:%POS\\t%REF\[\\t%SAMPLE=%GT\]\\n'

- **-l**, **--list-columns**

  List columns.

- **-r**, **--region** chr:from-to

  Retrieve the region. (Runs tabix.)

- **-h**, -?, **--help**

  This help message.

## EXAMPLES

-

  query-vcf file.vcf.gz 1:1000-2000 **-c** NA001,NA002,NA003 query-vcf file.vcf.gz **-r** 1:1000-2000 **-f** '%CHROM:%POS\\t%REF\[\\t%SAMPLE:%\*=,\]\\n' query-vcf file.vcf.gz **-f** '\[%GT\\t\]%LINE\\n' query-vcf file.vcf.gz **-f** '%CHROM\\t%POS\\t%INFO/DP\\t%FILTER\\n'