[Biococoa-dev] starting BCAlignment

John Timmer jtimmer at bellatlantic.net
Wed Mar 9 18:31:37 EST 2005

>>> If all of this is correct, then I think I know enough to actually
>>> help ;).
>> you are completly right !!! :-)

Good to know.  So, coding efficiently, how do matrix lookups normally work?
It's easy to see how a dictionary of dictionaries would work (ie - get
dictionary with the key "Cys", look up value for "Tyr" in it), but I'd
imagine they're normally implemented in much faster C code.

The reason I ask is that I'm expecting the lookup to work with char
variables, but I'd imagine the code could be adapted to use pointers instead
of a char.  If it is, since all our individual bases/amino acids are single
instance pointers, it'd be very easy to get this to work, and I'd be happy
to help you populate the matrix, as well as helping set up a .plist file
format to store it.



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