---
name: "fastaq_filter"
section: "1"
platform: "linux"
package: "fastaq"
version: "1.5.0-1"
release: "Debian 8 (Jessie)"
platforms: ["linux"]
url: "https://new.carta.tech/fastaq_filter"
---

# fastaq\_filter(1)

## NAME

fastaq\_filter

## DESCRIPTION

 fastaq\_filter \[options\] \<infile\> \<outfile\>

Filters a fasta/q file by sequence length and/or by name matching a regular expression

### positional arguments:

- infile

  Name of fasta/q file to be filtered

- outfile

  Name of output fasta/q file

### optional arguments:

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

  show this help message and exit

- **--min\_length** INT

  Minimum length of sequence to keep \[0\]

- **--max\_length** INT

  Maximum length of sequence to keep \[inf\]

- **--regex** REGEX

  If given, only reads with a name matching the regular expression will be kept

- **--ids\_file** IDS\_FILE

  If given, only reads whose ID is in th given file will be used. One ID per line of file.

- **-v**, **--invert**

  Keep sequences that do not match the filters

## AUTHOR

fastaq\_filter was originally written by Martin Hunt (mh12@sanger.ac.uk)

## COPYING

Wellcome Trust Sanger Institute Copyright © 2013 Wellcome Trust Sanger Institute This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 3 of the License, or (at your option) any later version.