The MetNet Plug-ins for Cytoscape are a set of Java open-source programs for visualizing and analyzing biological networks. The goal is to capture the intuitions of biologists and provide a modeling framework to assess large amounts of data.

The resulting sub-networks can be identified and interpreted using simple fuzzy cognitive maps. Data from high-throughput experiments (transcriptomics, proteomics and metabolomics) can be displayed and modeled in the context of the network graphs.

Features of the MetNet Plugins for Cytoscape

Data Sources

The plug-ins are designed to visualize networks from the MetNetDB. These files are accessible using the XMLBuilder tool. We are also working to import data files in SBML and from the BioCyc project for more pathway information.

Screenshot of Cytoscape with the FCModeler Visual Style