[Biojava-l] hmm profile comparison
KPetrov at ics.uci.edu
Sat Nov 1 20:12:40 EST 2003
> is there a way to compare 2 existing hmm profiles using biojava api?
> Or probably there is another type of profiling system that allows
> comparisons of the profiles rather than sequences?
On Sun, 2003-11-02 at 02:29, Schreiber, Mark wrote:
> If you want to see if two profiles have the same parameters you can
> get the Distributions from each state and use the
> DistributionTools.areEmissionSpectraEqual() method to tell you if
> they are the same. You should also test that the Distribution that
> holds the transitions is equal.
As far as I understand that would let me know if two profiles are equal
or not. The problem, however, is identifying the distance between 2
profiles. Basically, I would want to use the HMM for separtion of a
group of sequences into 2 distinct groups. Is that possible?
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