NAME

fastq-kmers - print the frequency of all k-mers for a given k

SYNOPSIS

fastq-kmers [OPTION]... [FILE]...

DESCRIPTION

For a given k, for example k = 4, a table in the following format is output,

#kmer^frequency#
#AAAA^1358#
#AAAC^2393#
#AAAG^1039#
#AAAT^964#
#AACA^4076#
#...^...#
#TTTT^876#

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

OPTIONS

-k NUM, --size=NUM

The size of the k-mers to count, where 1 <= k <= 16. (default: 1)

-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>