Uses of Package
org.biojava.ontology
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Packages that use org.biojava.ontology Package Description org.biojava.bio.program.gff3 Support for reading and writing GFF3.org.biojava.bio.seq Classes and interfaces for defining biological sequences and informatics objects.org.biojava.bio.seq.db.biosql General purpose Sequence storage in a relational database.org.biojava.bio.seq.impl Standard in-memory implementations ofSequence
andFeature
.org.biojava.ontology A general-purpose API for ontologies.org.biojava.ontology.io Tools for loading and saving ontologies.org.biojava.ontology.obo org.biojavax.bio.seq Rich implementations of Sequences, Locations and Features.org.biojavax.ontology Extensions to the biojava ontology model that represent BioSQL ontology. -
Classes in org.biojava.ontology used by org.biojava.bio.program.gff3 Class Description Ontology An ontology.Term A term in an ontology. -
Classes in org.biojava.ontology used by org.biojava.bio.seq Class Description InvalidTermException Thrown to indicate that an ontology term is not acceptable or appropriate in a given contextTerm A term in an ontology. -
Classes in org.biojava.ontology used by org.biojava.bio.seq.db.biosql Class Description Ontology An ontology. -
Classes in org.biojava.ontology used by org.biojava.bio.seq.impl Class Description Term A term in an ontology. -
Classes in org.biojava.ontology used by org.biojava.ontology Class Description AbstractTerm Abstract implementation of term This provides basic change-forwarding functionality from the annotation and ontology properties.AlreadyExistsException Thrown to indicate that a term or triple can't be added to an ontology because it is already present.IntegerOntology IntegerOntology.IntTerm Ontology An ontology.OntologyException Thrown to indicate an error in an Ontology objectOntologyFactory A factory for Ontology instances.OntologyOps This is an interface for optimizing ontology operators.OntologyTerm A term in an ontology which identifies another ontology.RemoteTerm A term in another ontology.Synonym Term A term in an ontology.Term.Impl Simple in-memory implementation of an ontology term.Triple A triple in an ontology.Variable -
Classes in org.biojava.ontology used by org.biojava.ontology.io Class Description Ontology An ontology.OntologyException Thrown to indicate an error in an Ontology objectOntologyFactory A factory for Ontology instances. -
Classes in org.biojava.ontology used by org.biojava.ontology.obo Class Description Ontology An ontology.Synonym -
Classes in org.biojava.ontology used by org.biojavax.bio.seq Class Description InvalidTermException Thrown to indicate that an ontology term is not acceptable or appropriate in a given contextTerm A term in an ontology. -
Classes in org.biojava.ontology used by org.biojavax.ontology Class Description AlreadyExistsException Thrown to indicate that a term or triple can't be added to an ontology because it is already present.Ontology An ontology.OntologyOps This is an interface for optimizing ontology operators.Term A term in an ontology.Triple A triple in an ontology.Variable