pairsim {Onassis} | R Documentation |
pairsim
This method computes the semantic similarity between two terms of a given ontology.
pairsim(object, term1, term2) ## S4 method for signature 'Similarity,character,character' pairsim(object, term1, term2)
object |
instance of class |
term1 |
The URI of the ontology term in the format http://purl.obolibrary.org/obo/Ontology_id (e.g 'http://purl.obolibrary.org/obo/CL_0000542') |
term2 |
The URI of the ontology term |
the semantic similarity of the two provided concepts
sim <- new('Similarity') obo <- system.file('extdata', 'sample.cs.obo', package='OnassisJavaLibs') ontology(sim) <- obo pairwiseConfig(sim) <- listSimilarities()$pairwiseMeasures[9] similarity <- pairsim(sim, 'http://purl.obolibrary.org/obo/CL_0000542', 'http://purl.obolibrary.org/obo/CL_0000236')