Scimm is an unsupervised method to cluster sequences using
interpolated Markov models.  Scimm is initialized by clustering with
LikelyBin and my version of CompostBin.  PhyScimm is a partially
supervised method that uses Phymm to initialize Scimm.

Reference:
Kelley, DR and Salzberg, SL.  Clustering metagenomic sequences with
interpolated Markov models.  BMC Bioinformatics 11:154 2010.

Website (w/ manual):
http://www.cbcb.umd.edu/software/scimm