[Biopython-dev] [Bug 2653] New: Bio.SeqUtils.CodonUsage is not translation table aware

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

http://bugzilla.open-bio.org/show_bug.cgi?id=2653

           Summary: Bio.SeqUtils.CodonUsage is not translation table aware
           Product: Biopython
           Version: Not Applicable
          Platform: All
        OS/Version: All
            Status: NEW
          Severity: enhancement
          Priority: P2
         Component: Main Distribution
        AssignedTo: biopython-dev at biopython.org
        ReportedBy: biopython-bugzilla at maubp.freeserve.co.uk


Looking at Bio/SeqUtils/CodonUsage.py there is a hard coded dictionary
SynonymousCodons, presumably for the standard genetic code.

Ideally Bio.SeqUtils.CodonUsage should support any of the genetic code tables
defined in Bio.Data.CodonTable, perhaps via an optional initiation argument to
the CodonAdaptationIndex object.


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