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Bioinformatics Advance Access originally published online on December 23, 2005
Bioinformatics 2006 22(5):616-617; doi:10.1093/bioinformatics/btk021
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© The Author 2005. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

GenomeDiagram: a python package for the visualization of large-scale genomic data

Leighton Pritchard , Jennifer A. White , Paul R.J. Birch and Ian K. Toth

Plant Pathogen Programme, Scottish Crop Research Institute Invergowrie, Dundee, DD2 5DA, Scotland, UK

*To whom correspondence should be addressed.

Summary: We present GenomeDiagram, a flexible, open-source Python module for the visualization of large-scale genomic, comparative genomic and other data with reference to a single chromosome or other biological sequence. GenomeDiagram may be used to generate publication-quality vector graphics, rastered images and in-line streamed graphics for webpages. The package integrates with datatypes from the BioPython project, and is available for Windows, Linux and Mac OS X systems.

Availability: GenomeDiagram is freely available as source code (under GNU Public License) at http://bioinf.scri.ac.uk/lp/programs.html, and requires Python 2.3 or higher, and recent versions of the ReportLab and BioPython packages.

Contact: lpritc{at}scri.ac.uk

Supplementary Information A user manual, example code and images are available at http://bioinf.scri.ac.uk/lp/programs.html

Received on October 27, 2005; revised on December 8, 2005; accepted on December 21, 2005

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