[BioPython] codons and complements

[Kate]

----- Original Message -----
From: Andrew Dalke <andrew_dalke@hotmail.com>
> >The peptabiol database has a vocabulary for a bunch of
> >non-standard amino acids (usually found in fungi):
>
> >http://www.cryst.bbk.ac.uk/peptaibol
> >http://sanda.cryst.bbk.ac.uk/peptaibol/nomenclature.html
>
> Cool!  This is exactly what I wanted, since I knew there was
> a need to support different alphabets for different uses, and
> the mechanism I proposed is able to handle these.
>
   You may not always need to store/pass an entire alphabet.  Some of the
non-standard alphabets are different in only a few codons.    To save space,
you could pass these as a dictionary and use them to edit a copy of the
standard dictionary.  I experimented with fixup tables in perl.

                                                             Cayte