diginorm_with_khmer - Given a fastq file, it performs digital normalisation on the reads using khmer
version 1.160490
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>
Andrew J. Page <ap13@sanger.ac.uk>
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
To install Bio::AssemblyImprovement, copy and paste the appropriate command in to your terminal.
cpanm
cpanm Bio::AssemblyImprovement
CPAN shell
perl -MCPAN -e shell install Bio::AssemblyImprovement
For more information on module installation, please visit the detailed CPAN module installation guide.