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

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





------- Comment #8 from mdehoon at ims.u-tokyo.ac.jp  2007-10-18 22:15 EST -------
> It would be nice to simplify Biopython by also deprecating Bio.Translate,

To avoid a plethora of translation functions, I would prefer that.

> but if we want to do this without loss of current functionality we
> need to consider including the following in Bio.Seq:
> - translate_to_stop (all amino acids up to but excluding the first stop)

Whether or not to stop translating at the first stop codon could be an argument
to the translate method. As an alternative, it may be preferable to have a
split() method that splits the sequences at the stop codons. Such a method
could be applied to all protein sequences, not only those created by
translate().

> - back_translate (gives a single possible nucleotide sequence)
Does anybody actually use this function?


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