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Methods Mol Biol. 2012;804:281-95. doi: 10.1007/978-1-61779-361-5_15.

Using MCL to extract clusters from networks.

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  • 1European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, Cambridge, UK.


MCL is a general purpose cluster algorithm for both weighted and unweighted networks. The algorithm utilises network topology as well as edge weights, is highly scalable and has been applied in a wide variety of bioinformatic methods. In this chapter, we give protocols and case studies for clustering of networks derived from, respectively, protein sequence similarities and gene expression profile correlations.

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