[Biojava-l] Higer order HMMs

[Mark Schreiber]

Hi,

If I want a HMM to emit hexamers as in a gene finding HMM do I just create
a new hexamer alphabet and add that to the state or can it be mimicked by
the way that the transitions are set??

Also if I want a different states to emit pentamers and some to emit
triplets can they be combined in the same model using different alphabets?

Mark

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Mark Schreiber			Ph: 64 3 4797875
Rm 218				email mark_s@sanger.otago.ac.nz
Department of Biochemistry	email m.schreiber@clear.net.nz
University of Otago		
PO Box 56
Dunedin
New Zealand
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