SUMMARY: BioPAXViz is a Cytoscape (version 3) application, providing a 
comprehensive framework for metabolic pathway visualization. Beyond the basic 
parsing, viewing and browsing roles, the main novel function that BioPAXViz 
provides is a visual comparative analysis of metabolic pathway topologies across 
pre-computed pathway phylogenomic profiles given a species phylogeny. 
Furthermore, BioPAXViz supports the display of hierarchical trees that allow 
efficient navigation through sets of variants of a single reference pathway. 
Thus, BioPAXViz can significantly facilitate, and contribute to, the study of 
metabolic pathway evolution and engineering.
AVAILABILITY AND IMPLEMENTATION: BioPAXViz has been developed as a Cytoscape app 
and is available at: https://github.com/CGU-CERTH/BioPAX.Viz. The software is 
distributed under the MIT License and is accompanied by example files and data. 
Additional documentation is available at the aforementioned GitHub repository.
CONTACT: ouzounis@certh.gr.