Ewan Birney

NAME

Bio::LiveSeq::Translation - Translation class for LiveSeq

SYNOPSIS

  #documentation needed

DESCRIPTION

This stores informations 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: Insana@ebi.ac.uk, jinsana@gmx.net

Address:

     EMBL Outstation, European Bioinformatics Institute
     Wellcome Trust Genome Campus, Hinxton
     Cambs. CB10 1SD, United Kingdom 

APPENDIX

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

new

  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

get_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

aa_ranges

  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