[BioC] BioPAX parsing

[Martin Preusse]

Many biological pathway resourced provide their data in the BioPAX format (http://www.biopax.org/index.php), a special XML format for biological interaction networks. Examples are pathway commons (http://www.pathwaycommons.org/pc/) and Reactome (http://www.reactome.org (http://www.reactome.org/)).

A JAVA library for parsing BioPAX files exists: http://www.biopax.org/paxtools.php

Has anybody used BioPAX files with R? Is it possible to read BioPAX files in any R based graph structure? A solution similar to the KEGGgraph package for KEGG pahways would be great, since more and more databases start using BioPAX.


Any ideas are appreciated!

Cheers
Martin