---
name: "FilterSeq.py"
section: "1"
platform: "linux"
package: "presto"
version: "0.7.2-2"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/FilterSeq.py"
---

# FilterSeq.py(1)

Filters sequences in FASTA/FASTQ files

## NAME

FilterSeq.py - Filters sequences in FASTA/FASTQ files

## DESCRIPTION

usage: FilterSeq.py \[--version\] \[-h\]  ...

Filters sequences in FASTA/FASTQ files

### help:

- **--version**

  show program's version number and exit

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

  show this help message and exit

### subcommands:

-

  Filtering operation

- length

  Filters reads by length.

- missing

  Filters reads by N or gap character count.

- repeats

  Filters reads by consecutive nucleotide repeats.

- quality

  Filters reads by quality score.

- maskqual

  Masks low quality positions.

- trimqual

  Trims sequences by quality score decay.

### output files:

-

  \<command\>-pass

-

  reads passing filtering operation and modified accordingly, where \<command\> is the name of the filtering operation that was run.

-

  \<command\>-fail

-

  raw reads failing filtering criteria, where \<command\> is the name of the filtering operation.

### output annotation fields:

-

  None

## AUTHOR

 This manpage was written by Andreas Tille for the Debian distribution and\
  can be used for any other usage of the program.