NetworkAnalyzerDemo: Computation and Visualization of Topological Parameters and Centrality Measures for Biological Networks

Yassen Assenov1, Nadezhda Doncheva1, Thomas Lengauer1, and Mario Albrecht1

1 Department of Computational Biology and Applied Algorithmics, Max Planck Institute for Informatics, Campus E1.4, 66123 Saarbrücken, Germany

NetworkAnalyzer is a versatile and highly customizable Cytoscape plugin that requires no expert knowledge in graph theory from the user. It computes and displays a comprehensive set of topological parameters and centrality measures for undirected and directed networks, which includes the number of nodes, edges, and connected components, the network diameter, radius, density, centralization, heterogeneity, clustering coefficient, and the characteristic path length. In addition, NetworkAnalyzer shows charts of the distribution of node degrees, neighborhood connectivities, average clustering coefficients, and shortest path lengths. NetworkAnalyzer also contains extra functionality, for instance, for constructing the intersection or union of two networks.

The NetworkAnalyzer plugin and a comprehensive online documentation with a tutorial are available at

Data keywords: network, graph, topology

Cytoscape keywords: Network Analysis

NetworkAnalyzer (last edited 2009-02-12 01:03:27 by localhost)

Funding for Cytoscape is provided by a federal grant from the U.S. National Institute of General Medical Sciences (NIGMS) of the Na tional Institutes of Health (NIH) under award number GM070743-01. Corporate funding is provided through a contract from Unilever PLC.

MoinMoin Appliance - Powered by TurnKey Linux