ontoCAR-package | The ontoCAT package provides a simple interface to the Experimental |
getAccession | Returns accession of the ontology term |
getAccession-method | Class "OntologyTerm" |
getAllTermChildren | Returns all term's children |
getAllTermChildren-method | Class "OntologyParser" |
getAllTermIds | Returns accessions of all ontology terms |
getAllTermIds-method | Class "OntologyParser" |
getAllTermParents | Returns all term's parents |
getAllTermParents-method | Class "OntologyParser" |
getAllTerms | Returns all ontology terms |
getAllTerms-method | Class "OntologyParser" |
getDefinitions | Returns set of ontology term's definitions |
getDefinitions-method | Class "OntologyParser" |
getEFOBranchRootIds | Returns all term's parents |
getEFOBranchRootIds-method | Class "OntologyParser" |
getEFOParser | Returns an instance of the EFO ontology parser |
getLabel | Returns label of the ontology term |
getLabel-method | Class "OntologyTerm" |
getOntologyAccession | Returns ontology accession |
getOntologyAccession-method | Class "OntologyParser" |
getOntologyDescription | Returns ontology description |
getOntologyDescription-method | Class "OntologyParser" |
getOntologyParser | Returns an instance of the ontology parser created from OWL or OBO file |
getRootIds | Returns root terms of ontology |
getRootIds-method | Class "OntologyParser" |
getRoots | Returns root terms of ontology |
getRoots-method | Class "OntologyParser" |
getSynonyms | Returns set of ontology term's synonyms |
getSynonyms-method | Class "OntologyParser" |
getTermAndAllChildrenIds | Returns accessions of all term's parents and term itself |
getTermAndAllChildrenIds-method | Class "OntologyParser" |
getTermById | Returns ontology term |
getTermById-method | Class "OntologyParser" |
getTermChildren | Returns direct children of term of interest |
getTermChildren-method | Class "OntologyParser" |
getTermNameById | Returns ontology term's label |
getTermNameById-method | Class "OntologyParser" |
getTermParents | Returns set of direct parents of the term of interest |
getTermParents-method | Class "OntologyParser" |
getTreeDownTo | Returns all term's parents |
getTreeDownTo-method | Class "OntologyParser" |
hasTerm | Returns true if term is in ontology |
hasTerm-method | Class "OntologyParser" |
isEFOBranchRoot | Returns true if term is the branch root in EFO |
isEFOBranchRoot-method | Class "OntologyParser" |
isRoot | Returns true if term is the root in the ontology hierarchy |
isRoot-method | Class "OntologyParser" |
ontoCAR | The ontoCAT package provides a simple interface to the Experimental |
OntologyParser-class | Class "OntologyParser" |
OntologyTerm-class | Class "OntologyTerm" |
searchTerm | Searches term by its name in ontology |
searchTerm-method | Class "OntologyParser" |
searchTermPrefix | Searches for term by prefix in ontology |
searchTermPrefix-method | Class "OntologyParser" |
show-method | Class "OntologyTerm" |