getAccession | Returns accession of the ontology term |
getAllTermChildren | Returns all children of term of interest |
getAllTermChildrenById | Returns all children of term of interest |
getAllTermIds | Returns accessions of all ontology terms |
getAllTermParents | Returns set of all parents of the term of interest |
getAllTermParentsById | Returns set of all parents of the term of interest |
getAllTerms | Returns all ontology terms |
getEFO | Returns an instance of the EFO ontology parser |
getEFOBranchRootIds | Returns all term's parents |
getLabel | Returns label of the ontology term |
getOntology | Returns an instance of the ontology parser created from OWL... |
getOntologyAccession | Returns ontology accession |
getOntologyDescription | Returns ontology description |
getOntologyNoReasoning | Returns an instance of the ontology parser created from OWL... |
getOntologyRelationNames | Returns list of relations used in ontology |
getRootIds | Returns root terms of ontology |
getRoots | Returns root terms of ontology |
getTermAndAllChildren | Returns accessions of all term's parents and term itself |
getTermAndAllChildrenById | Returns accessions of all term's parents and term itself |
getTermById | Returns ontology term |
getTermChildren | Returns direct children of term of interest |
getTermChildrenById | Returns direct children of term of interest |
getTermDefinitions | Returns set of ontology term's definitions |
getTermDefinitionsById | Returns set of ontology term's definitions |
getTermNameById | Returns ontology term's label |
getTermParents | Returns set of direct parents of the term of interest |
getTermParentsById | Returns set of direct parents of the term of interest |
getTermRelationNames | Returns list of relation names available for the term |
getTermRelationNamesById | Returns list of relation names available for the term |
getTermRelations | Returns set of terms that are in defined relation with term... |
getTermRelationsById | Returns set of terms that are in defined relation with term... |
getTermSynonyms | Returns set of ontology term's synonyms |
getTermSynonymsById | Returns set of ontology term's synonyms |
hasTerm | Returns true if term is in ontology |
isEFOBranchRoot | Returns true if term is the branch root in EFO |
isEFOBranchRootById | Returns true if term is the branch root in EFO |
isRoot | Returns true if term is the root in the ontology hierarchy |
isRootById | Returns true if term is the root in the ontology hierarchy |
ontoCAT-package | The ontoCAT package provides a simple interface to the... |
Ontology-class | Class "Ontology" |
OntologyTerm-class | Class "OntologyTerm" |
searchTerm | Searches term by its name in ontology |
searchTermPrefix | Searches for term by prefix in ontology |
showHierarchyDownToTerm | Returns tree representation of term's parents |
showHierarchyDownToTermById | Returns tree representation of term's parents |
showPathsToTerm | Returns paths to the term |
showPathsToTermById | Returns paths to the term |
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