Raw content of Bio::EnsEMBL::Variation::DBSQL::DBAdaptor
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# Ensembl module for Bio::EnsEMBL::Variation::DBSQL::DBAdaptor
#
# Copyright (c) 2004 Ensembl
#
# You may distribute this module under the same terms as perl itself
#
#
=head1 NAME
Bio::EnsEMBL::DBSQL::DBAdaptor
=head1 SYNOPSIS
=head1 DESCRIPTION
This module provides a connection to an Ensembl variation database and
provides a means to obtain ObjectAdaptors.
=head1 AUTHOR - Graham McVicker
=head1 CONTACT
Post questions to the Ensembl development list ensembl-dev@ebi.ac.uk
=head1 METHODS
=cut
use strict;
use warnings;
package Bio::EnsEMBL::Variation::DBSQL::DBAdaptor;
use Bio::EnsEMBL::DBSQL::DBAdaptor;
use Bio::EnsEMBL::Utils::Exception qw(throw warning);
use Bio::EnsEMBL::Utils::Argument qw(rearrange);
our @ISA = ('Bio::EnsEMBL::DBSQL::DBAdaptor');
sub get_available_adaptors{
my %pairs = (
'Population' => 'Bio::EnsEMBL::Variation::DBSQL::PopulationAdaptor',
'Individual' => 'Bio::EnsEMBL::Variation::DBSQL::IndividualAdaptor',
'Variation' => 'Bio::EnsEMBL::Variation::DBSQL::VariationAdaptor',
'VariationFeature' => 'Bio::EnsEMBL::Variation::DBSQL::VariationFeatureAdaptor',
'VariationAnnotation' => 'Bio::EnsEMBL::Variation::DBSQL::VariationAnnotationAdaptor',
'AlleleFeature' => 'Bio::EnsEMBL::Variation::DBSQL::AlleleFeatureAdaptor',
'LDFeatureContainer' => 'Bio::EnsEMBL::Variation::DBSQL::LDFeatureContainerAdaptor',
# 'IndividualGenotype' => 'Bio::EnsEMBL::Variation::DBSQL::IndividualGenotypeAdaptor',
'IndividualGenotype' => 'Bio::EnsEMBL::Variation::DBSQL::CompressedGenotypeAdaptor',
'PopulationGenotype' => 'Bio::EnsEMBL::Variation::DBSQL::PopulationGenotypeAdaptor',
'TranscriptVariation' => 'Bio::EnsEMBL::Variation::DBSQL::TranscriptVariationAdaptor',
'VariationGroup' => 'Bio::EnsEMBL::Variation::DBSQL::VariationGroupAdaptor',
'AlleleGroup' => 'Bio::EnsEMBL::Variation::DBSQL::AlleleGroupAdaptor',
'VariationGroupFeature' => 'Bio::EnsEMBL::Variation::DBSQL::VariationGroupFeatureAdaptor',
'MetaCoordContainer' => 'Bio::EnsEMBL::DBSQL::MetaCoordContainer',
'MetaContainer' => 'Bio::EnsEMBL::Variation::DBSQL::MetaContainer',
'ReadCoverage' => 'Bio::EnsEMBL::Variation::DBSQL::ReadCoverageAdaptor',
# 'CompressedGenotype' => 'Bio::EnsEMBL::Variation::DBSQL::CompressedGenotypeAdaptor',
'VariationFeatureCollection' => 'Bio::EnsEMBL::Variation::Collection::VariationFeature',
'VariationAnnotation' => 'Bio::EnsEMBL::Variation::DBSQL::VariationAnnotationAdaptor',
'ReadCoverageCollection' => 'Bio::EnsEMBL::Variation::DBSQL::ReadCoverageCollectionAdaptor',
);
return (\%pairs);
}
1;
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