Any Ideas To Increase Hmm Classification Accuracy Of Two Groups Of Proteins? · Biostar

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Any Ideas To Increase Hmm Classification Accuracy Of Two Groups Of Proteins?

Hi I have built a profile hmm for antifreeze proteins( http://pfam.sanger.ac.uk/family/PF08666) and am testing out antifreeze proteins and antifreeze-like proteins (http://pfam.sanger.ac.uk/family/PF13144) however they both score very similarly against the hmm model.I was wondering if anyone had suggestions like biasing the transition/emission matrices to help the model discriminate between the two a bit better. anyone had any experience with biasing hmm's?

Thanks

protein hmm

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updated 9.7 years ago by Biostar

• written 12.8 years ago by arronslacey

I suspect, given that antifreeze proteins are rather "floppy", unstructured things, that you won't see much more discrimination between these groups.

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written 12.8 years ago by Neilfws

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