Bio::VertRes::Config::Pipelines::Mapping - The base class for the mapping pipeline.
version 1.133090
The base class for the mapping pipeline. It wont produce useable output on its own, you need to call a sub classed mapper for that. use Bio::VertRes::Config::Pipelines::Mapping;
my $pipeline = Bio::VertRes::Config::Pipelines::Mapping->new( database => 'abc', reference => 'Staphylococcus_aureus_subsp_aureus_ABC_v1', limits => { project => ['ABC study'], species => ['EFG'] }, slx_mapper => 'bwa', slx_mapper_exe => '/path/to/mapper/mapper.exe' ); $pipeline->to_hash();
Andrew J. Page <ap13@sanger.ac.uk>
This software is Copyright (c) 2013 by Wellcome Trust Sanger Institute.
This is free software, licensed under:
The GNU General Public License, Version 3, June 2007
To install Bio::VertRes::Config, copy and paste the appropriate command in to your terminal.
cpanm
cpanm Bio::VertRes::Config
CPAN shell
perl -MCPAN -e shell install Bio::VertRes::Config
For more information on module installation, please visit the detailed CPAN module installation guide.