DomainGraphDemo: Visual Analysis of the Effects of Alternative Splicing on Protein and Domain Interaction 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 http://med.bioinf.mpi-inf.mpg.de/networkanalyzer/

Data keywords: network, graph, topology

Cytoscape keywords: Network Analysis