NAME

fastq-uniq - filter out reads with identical sequences

SYNOPSIS

fastq-uniq [OPTION]... PATTERN [FILE]...

DESCRIPTION

Print a non-redundant list of occurring sequences, removing all duplicate sequences. Output is in FASTA format (as quality strings are ignored), with sequence identifiers formatted as,

>uniq-read-N (M copies)

Where, N in a unique number assigned to the sequence and M is the number of copies occurring.

One or more FILEs may be specified, otherwise input is read from standard input. Input files may be gziped.

OPTIONS

-v, --verbose

Print status updates along the way.

-h, --help

Output a help message and exit.

-V, --version

Output version information and exit.

AUTHOR

Written by Daniel C. Jones <dcjones@cs.washington.edu>