NAME

diginorm_with_khmer - Given a fastq file, it performs digital normalisation on the reads using khmer

VERSION

version 1.160490

SYNOPSIS

Given a fastq file, perform digital normalisation on it.

Usage: diginorm_with_khmer [options]

		-i|input_file          <input fastq file>
		-c|desired_coverage	   <desired median coverage>
        -k|kmer_length	       <the length of kmer to be used>
        -n|number_of_hashes    <number of hashes>
        -m|minimum_hash_size   <minimum hash size>
        -p|paired			   <is the data paired?>
        -o|output_directory	   <output directory for results file>
        -z|output_filename	   <name of output filename if not using default of digitally_normalised.fastq.gz>
        -e|khmer_exec		   <khmer exec>
        -py|python_exec		   <default is python-2.7>
        -d|debug			   <debug>
        -h|help      		   <this message>

AUTHOR

Andrew J. Page <ap13@sanger.ac.uk>

COPYRIGHT AND LICENSE

This software is Copyright (c) 2012 by Wellcome Trust Sanger Institute.

This is free software, licensed under:

The GNU General Public License, Version 3, June 2007