Use Case Name : Network Clustering

For Feature : Groups

Editors: Gary Bader

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A user would like to find densely connected regions in a network according to some criteria and view the region as a single node. This usually has the effect of simplifying the network and making higher order network structure more apparent.

Step-by-Step User Action

  1. User runs network clustering algorithm, such as MCODE, BioModules or ActiveModules to detect 'modules' in the network. Modules are connected subnetworks satisfying some criteria, such as densely connected or transcriptionally active.

  2. User views results and chooses to collapse discovered modules into single nodes. The connections between the modules can be important.

Visual Aides

Requirements for Cytoscape


Other Examples


groupAPI/UseCase_1 (last edited 2009-02-12 01:03:15 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.

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