---
name: "vcfld"
section: "1"
platform: "linux"
package: "libvcflib-tools"
version: "1.0.12+dfsg-1"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/vcfld"
---

# vcfld(1)

## NAME

**vcfld**

## SYNOPSIS

**vcfld** –target 0,1,2,3,4,5,6,7 –background 11,12,13,16,17,19,22 –file my.vcf -e -d -r

## DESCRIPTION

Compute LD

## OPTIONS

-

  ```
  required: t,target     -- argument: a zero base comma separated list of target individuals corresponding to VCF columns
  required: b,background -- argument: a zero base comma separated list of background individuals corresponding to VCF columns
  required: f,file       -- argument: a properly formatted phased VCF file
  required: y,type       -- argument: type of genotype likelihood: PL, GL or GP
  optional: w,window     -- argument: window size to average LD; default is 1000
  optional: e,external   -- switch: population to calculate LD expectation; default is target
  optional: d,derived    -- switch: which haplotype to count "00" vs "11"; default "00",
  Type: transformation
  ```

## EXIT VALUES

- **0**

  Success

- **not 0**

  Failure

## SEE ALSO

[**vcflib**(1)](/vcflib/1.md)

## OTHER

## LICENSE

Copyright 2011-2024 (C) Erik Garrison and vcflib contributors. MIT licensed. Copyright 2020-2024 (C) Pjotr Prins.

## AUTHORS

Erik Garrison and vcflib contributors.