GitHub - davek44/Scimm: Sequence clustering with interpolated Markov models

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Sequence clustering with interpolated Markov models

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Name		Name	Last commit message	Last commit date
Latest commit History 45 Commits
CBCBCompostBin		CBCBCompostBin
bin		bin
glimmer3.02		glimmer3.02
likelybin-0.1		likelybin-0.1
LICENSE		LICENSE
README		README
install_physcimm.py		install_physcimm.py
install_scimm.py		install_scimm.py

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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