NAME

Bio::ViennaNGS::BamStat - Moose interface to BAM mapping statistics

SYNOPSIS

use Bio::ViennaNGS::BamStat;

my $bamsummary = Bio::ViennaNGS::BamStatSummary->new(files          => "path/to/file.bam",
                                                     outpath        => "path/to/output.directory",
                                                     rlib           => "path/to/R_installation",
                                                     is_segemehl    =>  0|1,
                                                     control_match  =>  0|1,
                                                     control_clip   =>  0|1,
                                                     control_split  =>  0|1,
                                                     control_qual   =>  0|1,
                                                     control_edit   =>  0|1,
                                                     control_flag   =>  0|1,
                                                     control_score  =>  0|1,
                                                    );

DESCRIPTION

This module provides a Moose interface to the mapping statistics of a single BAM file. It builds on Bio::DB::Sam.

DEPENDENCIES

Bio::DB::Sam >= 1.39

Moose

SEE ALSO

Bio::ViennaNGS

Bio::ViennaNGS::BamStatSummary

AUTHORS

Fabian Amman <fabian@tbi.univie.ac.at>

Michael T. Wolfinger <michael@wolfinger.eu>

COPYRIGHT AND LICENSE

Copyright (C) 2015 by Michael T. Wolfinger

This library is free software; you can redistribute it and/or modify it under the same terms as Perl itself, either Perl version 5.16.3 or, at your option, any later version of Perl 5 you may have available.

This software is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.