Hello,
I have good news! I have fixed the bug in the BaumWelchTrainer class
(hopefully the source in CVS will be updated soon).
Now that I am able to train my Profile HMM, I would like to feed my HMM
into a Fisher Kernel to perform SVM training in order to find the proper
scoring threshold for proper classification (ie - use SVM classification
to set a barrier for my HMM log-odds scores).
Has anyone implemented a Fisher Kernel (or one like it) for the BioJava
SVM classes? Any information here would be greatly appreciated.
Thanks,
Todd
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