MuGeN: simultaneous exploration of multiple genomes and computer analysis results

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Abstract
Motivation: The availability of increasing amounts of sequence data about completely sequenced genomes spurs the development of new methods in the fields of automated annotation, and of comparative genomics. Tools allowing the visualization of results produced by analysis methods, superimposed on possibly annotated sequence data, and enabling synchronized navigation in multiple genomes, provide new means for interactive genome exploration. This kind of visual inspection can be used as a basis to assess the quality of new analysis algorithms, or to discover genome portions to be subjected to in-depth studies. Results: We propose a software package, MuGeN, built for navigating through multiple annotated genomes. It is capable of retrieving annotated sequences in several formats, stored in local files, or available in databases over the network. From these, it then generates an interactive display, or an image file, in most common formats suitable for printing, further editing or integrating in Web pages. Genome maps may be mixed with computer analysis results loaded from XML files, whose format is generic enough to be adapted to a majority of sequence oriented analysis methods. Availability: MuGeN is available at http://www-mig.jouy.inra.fr/bdsi/MuGeN Contact: mark.hoebeke@jouy.inra.fr Supplementary information: The supplementary information cited in this paper is available at http://www-mig.jouy.inra.fr/bdsi/MuGeN/Paper/supp.html * To whom correspondence should be addressed.

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