Bio::LiveSeq::Translation 1.4

Bio::LiveSeq::Translation is a translation class for LiveSeq.

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).

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