---
name: "pyfastx"
section: "1"
platform: "linux"
package: "pyfastx"
version: "2.2.0-1+b1"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/pyfastx"
---

# pyfastx(1)

fast random access to sequences from FASTA/Q file

## NAME

pyfastx - fast random access to sequences from FASTA/Q file

## DESCRIPTION

usage: pyfastx COMMAND \[OPTIONS\]

A command line tool for FASTA/Q file manipulation

### options:

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

  show this help message and exit

- **-v**, **--version**

  show program's version number and exit

Commands:

- index

  build index for fasta/q file

- stat

  show detailed statistics information of fasta/q file

- split

  split fasta/q file into multiple files

- fq2fa

  convert fastq file to fasta file

- subseq

  get subsequences from fasta file by region

- sample

  randomly sample sequences from fasta or fastq file

- extract

  extract full sequences or reads from fasta/q file

## SEE ALSO

Each subcommand has its own on line help, which can be queried for instance with:

```
$ pyfastx index --help
usage: pyfastx index [-h] [-f] fastx [fastx ...]
positional arguments:
  fastx       fasta or fastq file, gzip support
options:
  -h, --help  show this help message and exit
  -f, --full  build full index, base composition will be calculated
```

Look up /usr/share/doc/pyfast/README.rst for more complete documentation.