>> I'd like to retrieve profile matrixes from Prosite and use them
> in GCG programs (e.g. findpatterns). The only problem is that the
> format are not compatible. Does anybody knows a "translater" that
> can convert a Prosite profile matrix into a GCG profile matrix ?
>> Thanks in advance,
The point is that the extended profiles in Prosite have more
information than the current "gcg style" profiles. I have some
code that does an approximate conversion, but it is not suggested
as the best way to do it.
currently I am switching over all my work (PairWise and SearchWise)
to run using extended profile formats and HMMs from HMMer: so,
if you wait a couple of months...
I could make a little converter program now. What is the need for
this (does prosite provide something at the moment?)