Bioperl: article for Dr. Dobb's Journal
Mon, 12 Oct 1998 17:15:33 -0400
> > Protein sequences use the letters
> > A,C,D,E,F,G,H,I,K,L,M,N,P,Q,R,S,T,U,V,W, and Y.
> Remove U from this list. It represents selenocysteine which is not
> part of the standard code. This would give you Gustavo's 20.
Ah ha! I was wondering where my 21st amino acid came from. So much
for copying codon tables out of other people's code.
> > Sequence::Base
> I would recommend changing this to Sequence::Generic since it is
> possible to confuse this with a nucleotide base (AGCTU). You refer to
> it later on as generic sequence class. (Incidentally, one may want a
> class to represent a nucleotide base, especially when working
> with structure.)
> > Unlike C++ or Java, Perl's object system allows for multiple
> > inheritance, ...
> C++ has multiple inheritence.
H'mmm. Maybe I should say "usable" multiple inheritance?
Thanks for these and the other comments.
Lincoln D. Stein Cold Spring Harbor Laboratory
firstname.lastname@example.org Cold Spring Harbor, NY
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