[Biopython-dev] [Bug 2381] translate and transcibe methods for the Seq object (in Bio.Seq)

[bugzilla-daemon at portal.open-bio.org]

http://bugzilla.open-bio.org/show_bug.cgi?id=2381





------- Comment #41 from lpritc at scri.sari.ac.uk  2008-11-06 09:35 EST -------
(In reply to comment #40)
> > If you are asking about the current to_stop argument in CVS right now, if there
> > is no in frame stop codon it will translate all the sequence (to_stop has no
> > effect).  I've just updated the docstring to make this more explicit (see
> > Bio/Seq.py CVS revision 1.55).
> > 
> > Do you think "to_stop_codon" is a clearer argument name than "to_stop"?
> > 
> I think to_end because end does mean the end of the translation due to a stop
> codon or end of a sequence.

I would take 'to_end' to mean 'to the end of the passed sequence, ignoring all
stop codons along the way'.  'to_first_stop' is clearer, to my mind, and even
that leaves out the potential (and hopefully redundant) qualifier 'in-frame' ;)


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