NAME

Bio::Tradis::TradisPlot - Generate plots as part of a tradis analysis

VERSION

version 1.2

SYNOPSIS

Generate insertion plots for Artemis from a mapped fastq file and a reference in GFF format

use Bio::Tradis::TradisPlot;

my $pipeline = Bio::Tradis::TradisPlot->new(mappedfile => 'abc');
$pipeline->plot();

PARAMETERS

Required

mappedfile - mapped and sorted BAM file

Optional

METHODS

plot - create insertion site plots for reads in `mappedfile`. This file will be readable by the Artemis genome browser

AUTHOR

Carla Cummins <cc21@sanger.ac.uk>

COPYRIGHT AND LICENSE

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