groupsim {Onassis} | R Documentation

## Method groupsim

### Description

This method computes the semantic similarity between two groups of terms of a given ontology.

### Usage

    groupsim(object, termList1, termList2)

    ## S4 method for signature 'Similarity,character,character'
    groupsim(object, termList1,
      termList2)

### Arguments

`object` | instance of class `Similarity-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

### Value

the semantic similarity of the two provided groups of concepts

### Examples

    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

[Package Onassis version 1.8.2 Index]