06-27-2012
@vinodchauhan123 vs @pandeesh
@pandeesh Please take note of the title of the thread and take the time to propose your argument with supporting evidence, rather than question the views of another poster without any supporting evidence.
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LEARN ABOUT DEBIAN
go::model::evidence
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)