Bio::LiveSeq::Translation(3) Translation class for LiveSeq


#documentation needed


This stores information about aminoacids translations of transcripts. The implementation is that a Translation object is the translation of a Transcript object, with different possibilities of manipulation, different coordinate system and eventually its own ranges (protein domains).

AUTHOR - Joseph A.L. Insana

Email: [email protected], [email protected]


The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _


  Title   : new
  Usage   : $protein = Bio::LiveSeq::Translation->new(-transcript => $transcr);
  Function: generates a new Bio::LiveSeq::Translation
  Returns : reference to a new object of class Translation
  Errorcode -1
  Args    : reference to an object of class Transcript


  Title   : valid
  Usage   : $transcript = $obj->get_Transcript()
  Function: retrieves the reference to the object of class Transcript (if any)
            attached to a LiveSeq object
  Returns : object reference
  Args    : none


  Title   : aa_ranges
  Usage   : @proteinfeatures = $translation->aa_ranges()
  Function: to retrieve all the LiveSeq AARange objects attached to a
            Translation, usually created out of a SwissProt database entry
            crossreferenced from an EMBL CDS feature.
  Returns : an array
  Args    : none