groupsim {Onassis} | R Documentation |
This method computes the semantic similarity between two groups of terms of a given ontology.
groupsim(object, termList1, termList2) ## S4 method for signature 'Similarity,character,character' groupsim(object, termList1, termList2)
object |
instance of class |
termList1 |
A vector of URIs of ontology terms in the format http://purl.obolibrary.org/obo/Ontology_id (e.g http://purl.obolibrary.org/obo/BTO_0004732) |
termList2 |
A vector of URIs of ontology terms |
the semantic similarity of the two provided groups of concepts
sim <- new('Similarity') obo <- system.file('extdata', 'sample.cs.obo', package='OnassisJavaLibs') ontology(sim) <- obo pairwiseConfig(sim) <- listSimilarities()$pairwiseMeasures[9] groupConfig(sim) <- listSimilarities()$groupwiseMeasures[3] similarity <- groupsim(sim, c('http://purl.obolibrary.org/obo/CL_0000542', 'http://purl.obolibrary.org/obo/CL_0000236'), c('http://purl.obolibrary.org/obo/CL_0000000')) similarity