Section: Software and Platforms

MetaModGen: Generalizing Metabolic Models

Participants : Anna Zhukova [correspondant] , David James Sherman.

The metabolic model generalization and navigation software allows a human expert to explore a metabolic model in a layered manner. The software creates an on-line semantically zoomable representation of a model submitted by the user in SBML (http://sbml.org ) format. The most general view represents the compartments of the model; the next view shows the visualization of generalized versions of reactions and metabolites in each compartment (see section 6.3); and the most detailed view visualizes the initial model with the generalization-based layout (where similar metabolites and reactions are placed next to each other). Zoomable representation is implemented using the Leaflet(http://leafletjs.com ) JavaScript library for mobile-friendly interactive maps. Users can click on reactions and compounds to see the information about their annotations. An example of a zoomable representation of the peroxisome compartment of Y. lipolytica is available at http://metamogen.gforge.inria.fr/map.html .