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PhyloTrack

PhyloTrack is a JavaScript-based library for the interactive study of variation in clonal microorganisms, where the genomes of several isolates after been sequenced and their data analysed will be incorporated into an application with high user interactive functionality. The tools for the transformation of the data are written in Perl and Python. The resulting application consists of a Phylogenetic tree, a Map view, a Genome Browser and a processing tool for the Positioning of Samples in the phylogenetic tree.

To illustrate the usefulness of the software we considered 1,601 whole-genome sequences of Mycobacterium tuberculosis complex isolates (the etiological agent of tuberculosis) from different areas of the world and with representation of all seven major lineages and sub-lineages in which 91k SNPs have been identified (See screenshots) (http://pathogenseq.lshtm.ac.uk/phytblive/index.php).

The wiki contains 2 main pages the PhyTB help for the tool deployed and the Phylotrack library help referring to the library used to transform the data into the appropriate format.