[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 #9 from biopython-bugzilla at maubp.freeserve.co.uk  2007-10-25 18:03 EST -------
Created an attachment (id=795)
 --> (http://bugzilla.open-bio.org/attachment.cgi?id=795&action=view)
Rough patch to add methods to Bio.Seq

Part of this patch is to add ambiguous_generic_by_id and
ambiguous_generic_by_name entries to Bio.Data.CodonTable, variants of the
unambiguous generic_by_id and generic_by_name tables.  Using this lets us
properly translate ambiguous sequences.

This patch does NOT tackle back_translate, or have special treatment of
start/stop codons, in the Seq methods.

This patch does NOT mark Bio.Translate or Bio.Transcribe as deprecated.


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