Bio::Tradis::TradisPlot3pm
Generate plots as part of a tradis analysis
Usage
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();
Version
version 1.4.5
Parameters
Required
"mappedfile" - mapped and sorted BAM file
Optional
- •
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"outfile"- base name to assign to the resulting insertion site plot. Default = tradis.plot
- •
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"mapping_score"- cutoff value for mapping score. Default = 30
Methods
"plot" - create insertion site plots for reads in `mappedfile`. This file will be readable by the Artemis genome browser <http://www.sanger.ac.uk/resources/software/artemis/>
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 2007Releases
3 releases since Debian 11 (Bullseye); the text changed 1 time.