getAllTerms: Returns all ontology terms
In ontoCAT: Ontology traversal and search
Description
Usage
Arguments
Value
Author(s)
References
See Also
Examples
Description
Returns set of ontology terms, where each term is an instance of the OntologyTerm class.
Usage
1
getAllTerms(object)
Arguments
object
instance of the Ontology class
Value
Returns all terms from loaded ontology as objects of OntologyTerm class.
Author(s)
Natalja Kurbatova
References
Adamusiak T, Burdett T, van der Velde K J, Abeygunawardena N, Antonakaki D, Parkinson H and Swertz M: OntoCAT – a simpler way to access ontology resources. Available from Nature Precedings http://dx.doi.org/10.1038/npre.2010.4666.1 (2010)
Malone J, Holloway E, Adamusiak T, Kapushesky M, Zheng J, Kolesnikov N, Zhukova A, Brazma A, Parkinson H: Modeling Sample Variables with an Experimental Factor Ontology. Bioinformatics 2010, 26(8):1112–1118
Experimental Factor Ontology http://www.ebi.ac.uk/efo
Ontology Common API Tasks java library http://www.ontocat.org
Java sources and javadocs: http://sourceforge.net/projects/ontocat/files/
See Also
Ontology and OntologyTerm
Examples
1
2
3
file <- system.file("extdata", "cell.obo", package="ontoCAT")
ontologyFromFile <- getOntology(file)
getAllTerms(ontologyFromFile)
ontoCAT documentation built on Nov. 17, 2017, 12:06 p.m.
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Description Usage Arguments Value Author(s) References See Also Examples
Description
Returns set of ontology terms, where each term is an instance of the OntologyTerm class.
Usage
1 | getAllTerms(object)
|
Arguments
object |
instance of the |
Value
Returns all terms from loaded ontology as objects of OntologyTerm class.
Author(s)
Natalja Kurbatova
References
Adamusiak T, Burdett T, van der Velde K J, Abeygunawardena N, Antonakaki D, Parkinson H and Swertz M: OntoCAT – a simpler way to access ontology resources. Available from Nature Precedings http://dx.doi.org/10.1038/npre.2010.4666.1 (2010)
Malone J, Holloway E, Adamusiak T, Kapushesky M, Zheng J, Kolesnikov N, Zhukova A, Brazma A, Parkinson H: Modeling Sample Variables with an Experimental Factor Ontology. Bioinformatics 2010, 26(8):1112–1118
Experimental Factor Ontology http://www.ebi.ac.uk/efo
Ontology Common API Tasks java library http://www.ontocat.org
Java sources and javadocs: http://sourceforge.net/projects/ontocat/files/
See Also
Ontology and OntologyTerm
Examples
1 2 3 | file <- system.file("extdata", "cell.obo", package="ontoCAT")
ontologyFromFile <- getOntology(file)
getAllTerms(ontologyFromFile)
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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