Bio::AssemblyImprovement::DigitalNormalisation::Khmer::Main - Perform digital normalisation on sequencing reads
version 1.160490
Runs digital normalisation using khmer. Final results file (zipped) produced in directory of your choice (default: current working directory)
my $digi_norm = Bio::AssemblyImprovement::DigitalNormalisation::Khmer::Main->new( input_file => 'abc_shuffled.fastq', desired_coverage => '40', khmer_exec => '/path/to/normalise/script.py', python_exec => 'python-2.7', )->run; my $results = $digi_norm->_final_results_file;
Return full path to the results file
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.