CytoMCL

CytoMCL is a Cytoscape plugin for clustering networks using the MCL clustering algorithm.

The Cytoscape platform

Cytoscape is an open source bioinformatics software platform for visualizing, integrating and analyzing biological networks. It is easily extensible by developing  plugins.

For more info: http://www.cytoscape.org/

The MCL algorithm

The  Markov Cluster Algorithm (MCL), is a unsupervised cluster algorithm for  graphs . It is  based on simulation of (stochastic) flow in graphs.

The algorithm was designed and implemented by Stjin van Dongen at the Centre for Mathematics and Computer Science (also known as CWI) in the Netherlands.

For more info: http://micans.org/mcl