Bio::EnsEMBL
AffyArray
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Summary
Bio::EnsEMBL::AffyArray - A module to represent an Affymetrix array.
Package variables
No package variables defined.
Included modules
Inherit
Synopsis
use Bio::EnsEMBL::AffyArray;
my $array = Bio::EnsEMBL::AffyArray->new(
-NAME => 'Affy-1',
-INCLUDED_IN => $another_array,
-SETSIZE => 16,
);
Description
An AffyArray object represents an Affymetrix array. The data (currently
the name, probeset size and parent array) are stored in the oligo_array
table.
Each array can have a parent array (another array that contains all the
probes of this array). This is rarely (if ever) used.
Methods
Methods description
Args : None
Example : my $probes = $array->get_all_AffyProbes();
Description: Returns all probes on an Affy array. Needs a database
connection.
Returntype : Listref of Bio::EnsEMBL::AffyProbe objects
Exceptions : None
Caller : General
Status : Medium Risk |
Arg [-NAME]:
string - the name of this array
Arg [-INCLUDED_IN]:
(optional) Bio::EnsEMBL::OligoArray - a possible superset array
Arg [-SETSIZE]:
int - the number of probes in a probe set
Example : my $array = Bio::EnsEMBL::AffyArray->new(
-NAME => 'Affy-1',
-INCLUDED_IN => $another_array,
-SETSIZE => 16,
);
Description: Creates a new Bio::EnsEMBL::AffyArray object.
Returntype : Bio::EnsEMBL::AffyArray
Exceptions : None
Caller : General
Status : Medium Risk |
Methods code
sub get_all_AffyProbes
{ my $self = shift;
return $self->get_all_Probes();
}
1; } | sub new
{ my $caller = shift;
my $class = ref($caller) || $caller;
my $self = $class->SUPER::new(@_);
$self->type('AFFY');
return $self; } | General documentation
Copyright (c) 1999-2009 The European Bioinformatics Institute and
Genome Research Limited. All rights reserved.
This software is distributed under a modified Apache license.
For license details, please see
/info/about/code_licence.html