GO::Model::Evidence(3pm)				User Contributed Perl Documentation				  GO::Model::Evidence(3pm)

NAME

	 GO::Model::Evidence - evidence for an association

SYNOPSIS

	 my $ev_l = $association->evidence_list;
	 foreach my $ev (@$ev_l) {
	   print "Evidence for association %s : %s
",
	     $association->gene_product->symbol,
	     $ev->code;
	 }

DESCRIPTION

       evidence for an association

       see http://www.geneontology.org/GO.evidence.html for a list of evidence codes

   code
	 Usage	 - $ev->code("IEA");
	 Returns -
	 Args	 -

       gets/sets the evidence code

       see http://www.geneontology.org/GO.evidence.html

   seq_acc
	 Usage	 -
	 Returns -
	 Args	 -

       gets/sets the sequence accesion GO::Model::Xref

       ALPHA CODE  - API may change

       used to set the GO::Model::Xref list from a text string. eg

	 $ev->seq_acc("SGD:RRP41; SGDID:L0003550");

       will actually add two GO::Model::Xref objects

       This method doesnt really belong in the GO::Model::* hierarchy as it contains parsing code. Its a minor hack mainly due to the fact that
       this data is still denormalized in the database.

   add_seq_xref
	 Usage	 -
	 Returns -
	 Args	 -

       equivalent to WITH column in gene_association files, and evidence_dbxref tables in db

   add_pub_xref
	 Usage	 -
	 Returns -
	 Args	 -

   xref
	 Usage	 -
	 Returns -
	 Args	 -

       gets/sets the literature or sequence reference GO::Model::Xref

       NOTE: at some point we may want to deprecate this method and persuade API client code to call

	 $ev->literature_xref

       instead, to make explicit the fact that this is a literature reference as opposed to a sequence reference

   xref_list
	 Usage	 -
	 Returns - GO::Model::Xref listref
	 Args	 -

       returns all (sequence and literature) references

   xref
	 Usage	 -
	 Returns -
	 Args	 -

       deprected - sets first pub_xref_list

   valid_codes
	 Usage	 - print join("; ", GO::Model::Evidence->valid_codes);
	 Returns - string array
	 Args	 -

       list of valid evidence codes

perl v5.14.2							    2013-02-07						  GO::Model::Evidence(3pm)