| Package | Description | 
|---|---|
| org.biojava.ontology | 
 
A general-purpose API for ontologies. 
 | 
| org.biojavax.ontology | 
 Extensions to the biojava ontology model that represent BioSQL ontology. 
 | 
| Modifier and Type | Method and Description | 
|---|---|
OntologyTerm | 
Ontology.Impl.createOntologyTerm(Ontology o)  | 
Term | 
Ontology.createTerm(String name)
Create a new term in this ontology. 
 | 
Term | 
Ontology.Impl.createTerm(String name)  | 
Term | 
IntegerOntology.createTerm(String name)  | 
Term | 
Ontology.createTerm(String name,
          String description)
Create a new term in this ontology. 
 | 
Term | 
Ontology.Impl.createTerm(String name,
          String description)  | 
Term | 
IntegerOntology.createTerm(String name,
          String description)  | 
Term | 
Ontology.createTerm(String name,
          String description,
          Object[] synonyms)
Create a new term in this ontology. 
 | 
Term | 
Ontology.Impl.createTerm(String name,
          String description,
          Object[] synonyms)  | 
Term | 
IntegerOntology.createTerm(String name,
          String description,
          Object[] synonyms)  | 
Triple | 
Ontology.createTriple(Term subject,
            Term object,
            Term predicate,
            String name,
            String description)
Creates a new Triple. 
 | 
Triple | 
Ontology.Impl.createTriple(Term subject,
            Term object,
            Term predicate,
            String name,
            String description)  | 
Triple | 
IntegerOntology.createTriple(Term subject,
            Term object,
            Term predicate,
            String name,
            String description)  | 
Variable | 
Ontology.createVariable(String name,
              String description)
Create a new term in this ontology that is used as a variable. 
 | 
Variable | 
Ontology.Impl.createVariable(String name,
              String description)  | 
Variable | 
IntegerOntology.createVariable(String name,
              String description)  | 
| Modifier and Type | Method and Description | 
|---|---|
void | 
ComparableTriple.addDescriptor(ComparableTerm desc)
Adds a descriptor. 
 | 
Term | 
SimpleComparableOntology.createTerm(String name)
Create a new term in this ontology. 
 | 
Term | 
SimpleComparableOntology.createTerm(String name,
          String description)
Create a new term in this ontology. 
 | 
Term | 
SimpleComparableOntology.createTerm(String name,
          String description,
          Object[] synonyms)
Create a new term in this ontology. 
 | 
Triple | 
SimpleComparableOntology.createTriple(Term subject,
            Term object,
            Term predicate,
            String name,
            String description)
Creates a new Triple. 
 | 
Variable | 
SimpleComparableOntology.createVariable(String name,
              String description)
Create a new term in this ontology that is used as a variable. 
 | 
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