---
name: "vcf2fasta"
section: "1"
platform: "linux"
package: "libvcflib-tools"
version: "1.0.12+dfsg-1"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/vcf2fasta"
---

# vcf2fasta(1)

## NAME

**vcf2fasta**

## SYNOPSIS

**vcf2fasta** options \[file\]

## DESCRIPTION

Generates sample\_seq:N.fa for each sample, reference sequence, and chromosomal copy N in \[0,1... ploidy\]. Each sequence in the fasta file is named using the same pattern used for the file name, allowing them to be combined.

## OPTIONS

-

  ```
  options:
      -f, --reference REF     Use this reference when decomposing samples.
      -p, --prefix PREFIX     Affix this output prefix to each file, none by default
      -P, --default-ploidy N  Set a default ploidy for samples which do not have
                              information in the first record (2).
      -n VAL                  Set string value to output for missing calls
  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.