MOCASSIN-prot: a multi-objective clustering approach for protein similarity networks.Motivation
 The new method, MOCASSIN-prot, was applied to cluster multi-domain proteins from ten genomes.  The performance of MOCASSIN-prot was compared against two protein clustering methods, Markov clustering (TRIBE-MCL) and spectral clustering (SCPS).  We showed that compared to these two methods, MOCASSIN-prot, which uses both domain composition and quantitative sequence similarity information, generates fewer false positives.  MOCASSIN-prot, implemented in Perl and Matlab, is freely available at http://bioinfolab.unl.edu/emlab/MOCASSINprot.



MOCASSIN-prot