Man pages sections > man1 > fastq_quality_trimmer

fastq_quality_trimmer - Filters sequences based on quality

FASTQ_QUALITY_TRIMMER(1) User Commands FASTQ_QUALITY_TRIMMER(1)

NAME

fastq_quality_trimmer - Filters sequences based on quality

DESCRIPTION

usage: fastq_quality_trimmer [-h] [-v] [-t N] [-l N] [-z] [-i INFILE] [-o OUTFILE] Part of FASTX Toolkit 0.0.13.1 by A. Gordon (gordon@cshl.edu)
[-h]
= This helpful help screen.
[-t N]
= Quality threshold - nucleotides with lower
quality will be trimmed (from the end of the sequence).
[-l N]
= Minimum length - sequences shorter than this (after trimming)
will be discarded. Default = 0 = no minimum length.
[-z]
= Compress output with GZIP.
[-i INFILE]
= FASTQ input file. default is STDIN.
[-o OUTFILE] = FASTQ output file. default is STDOUT. [-v] = Verbose - report number of sequences.
If [-o] is specified,
report will be printed to STDOUT.
If [-o] is not specified (and output goes to STDOUT), report will be printed to STDERR.

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.
April 2012 fastq_quality_trimmer 0.0.13.1