---
name: "fastx_trimmer"
section: "1"
platform: "linux"
package: "fastx-toolkit"
version: "0.0.14-6"
release: "Debian 10 (Buster)"
platforms: ["linux"]
url: "https://new.carta.tech/fastx_trimmer"
---

# fastx\_trimmer(1)

FASTA/Q Trimmer

## NAME

fastx\_trimmer - FASTA/Q Trimmer

## DESCRIPTION

usage: fastx\_trimmer \[-h\] \[-f N\] \[-l N\] \[-t N\] \[-m MINLEN\] \[-z\] \[-v\] \[-i INFILE\] \[-o OUTFILE\] Part of FASTX Toolkit 0.0.14 by A. Gordon (assafgordon@gmail.com)

- \[-h\]

  \= This helpful help screen.

- \[-f N\]

  \= First base to keep. Default is 1 (=first base).

- \[-l N\]

  \= Last base to keep. Default is entire read.

- \[-t N\]

  \= Trim N nucleotides from the end of the read.

- '-t'

  can not be used with '-l' and '-f'.

- \[-m MINLEN\]

  \= With \[-t\], discard reads shorter than MINLEN.

- \[-z\]

  \= Compress output with GZIP.

- \[-i INFILE\]

  \= FASTA/Q input file. default is STDIN.

-

  \[-o OUTFILE\] = FASTA/Q output file. default is STDOUT.

## SEE ALSO

The quality of this automatically generated manpage might be insufficient.  It is suggested to visit

-

  http://hannonlab.cshl.edu/fastx\_toolkit/commandline.html

to get a better layout as well as an overview about connected FASTX tools.