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

# vcf-stats(1)

statistic of VCF file

## NAME

vcf-stats - statistic of VCF file

## SYNOPSIS

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

## OPTIONS

- **-d**, **--dump** \<file\>

  Take an existing dump file and recreate the files (works with **-p**)

- **-f**, **--filters** \<filter1,filter2\>

  List of filters such as column/field (any value), column/field=bin:max (cluster in bins),column/field=value (exact value)

- **-p**, **--prefix** \<dir/string\>

  Prefix of output files. If slashes are present, directories will be created.

- **-s**, **--samples** \<list\>

  Process only the listed samples, - for none. Excluding unwanted samples may increase performance considerably.

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

  This help message.

## EXAMPLES

-

  \# Calculate stats separately for the filter field, quality and non-indels vcf-stats file.vcf.gz **-f** FILTER,QUAL=10:200,INFO/INDEL=False **-p** out/

-

  \# Calculate stats for all samples vcf-stats file.vcf.gz **-f** FORMAT/DP=10:200 **-p** out/

-

  \# Calculate stats only for the sample NA00001 vcf-stats file.vcf.gz **-f** SAMPLE/NA00001/DP=1:200 **-p** out/

-

  vcf-stats file.vcf.gz \> perl.dump