Jun 122014
 

Tree-HMM 0.1.0

:: DESCRIPTION

Tree-HMM is an extension of the popular ChromHMM for doing clustering of epigenetic markers. Given a complete set of epigenetic markers for several cell types, and the phylogeny describing their relationship, Tree-HMM will perform approximate inference on the graphical model induced by connecting genomic positions of a certain cell type in a chain while also connecting different species according to the tree.

::DEVELOPER

CBCL Lab (Computational Biology and Computational Learning) @ UCI

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux/ Windows/MacOsX
  • Python

:: DOWNLOAD

 Tree-HMM

:: MORE INFORMATION

Citation:

BMC Bioinformatics. 2013;14 Suppl 5:S4. doi: 10.1186/1471-2105-14-S5-S4. Epub 2013 Apr 10.
Discovering and mapping chromatin states using a tree hidden Markov model.
Biesinger J1, Wang Y, Xie X.

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