Bio::Chado::Schema::Result::Sequence::FeatureRelationship
Features can be arranged in graphs, e.g. "exon part_of transcript part_of gene"; If type is thought of as a verb, the each arc or edge makes a statement [Subject Verb Object]. The object can also be thought of as parent (containing feature), and subject as child (contained feature or subfeature). We include the relationship rank/order, because even though most of the time we can order things implicitly by sequence coordinates, we can not always do this - e.g. transpliced genes. It is also useful for quickly getting implicit introns.
data_type: 'integer' is_auto_increment: 1 is_nullable: 0 sequence: 'feature_relationship_feature_relationship_id_seq'
data_type: 'integer' is_foreign_key: 1 is_nullable: 0
The subject of the subj-predicate-obj sentence. This is typically the subfeature.
The object of the subj-predicate-obj sentence. This is typically the container feature.
Relationship type between subject and object. This is a cvterm, typically from the OBO relationship ontology, although other relationship types are allowed. The most common relationship type is OBO_REL:part_of. Valid relationship types are constrained by the Sequence Ontology.
data_type: 'text' is_nullable: 1
Additional notes or comments.
data_type: 'integer' default_value: 0 is_nullable: 0
The ordering of subject features with respect to the object feature may be important (for example, exon ordering on a transcript - not always derivable if you take trans spliced genes into consideration). Rank is used to order these; starts from zero.
Type: belongs_to
Related object: Bio::Chado::Schema::Result::Sequence::Feature
Related object: Bio::Chado::Schema::Result::Cv::Cvterm
Type: has_many
Related object: Bio::Chado::Schema::Result::Sequence::FeatureRelationshipprop
Related object: Bio::Chado::Schema::Result::Sequence::FeatureRelationshipPub
To install Bio::Chado::Schema, copy and paste the appropriate command in to your terminal.
cpanm
cpanm Bio::Chado::Schema
CPAN shell
perl -MCPAN -e shell install Bio::Chado::Schema
For more information on module installation, please visit the detailed CPAN module installation guide.