Cytoscape

Cytoscape: A feature-rich application that enables you to view and analyze molecular interaction networks

Cytoscape is an advanced application designed for biology students, researchers and enthusiasts that want a reliable way to view and analyze molecular interaction networks and biological pathways.

The tool also provides numerous ways to annotate your files, and wraps all of its features in a neatly organized interface. It is possible to load multiple networks simultaneously, which you can edit and analyze as needed.

Very large networks might not be displayed and in this case, Cytoscape will highlight them in red. However, for the viewable large networks a bird’s eye view is offered so you can easily analyze them, as well as pan and zoom.

The application supports loading protein-protein interaction data sets in Excel Workbook, SBML, GraphML, Graph Markup Language, and BioPAX. With Cytoscape, you can view Resource Description Framework data, and analyze complex social networks with interpersonal relationships, thus if can be used in other fields of interest, besides biology.