Similarity-class: Similarity class to compute similarities between concepts in...

In Onassis: OnASSIs Ontology Annotation and Semantic SImilarity software

Description

Similarity is a class that wraps some methods of the Java library slib http://www.semantic-measures-library.org/sml/. Starting from OBO ontologies it is possible to build semantic graphs that allow the computation of different similarity measures between concepts belonging to the same ontology, group of concepts, samples annotated with different ontology concepts. Further details about the graph based semantic similarity measures are available at http://www.semantic-measures-library.org/sml/index.php?q=doc_graph_based_advanced

Details

The following methods can be applied to Similarity

ontology<-
pairwiseConfig
groupConfig
sim
groupsim
samplesim
To see the available similarity measures run the function listSimilarities

Slots

similarityInstance

The Java reference to the Java Similarity class.

pairwiseConfig

The list of measures used to compute the semantic similarity between two concpets in the same ontology.

pairwiseConfigRef

The reference to the Java object of type CMconf corresponding to the pairwise configuration

groupConfig

The groupwise configuration to compute the semantic similarity between groups of concepts.

icConfig

The information content measure

groupwiseConfigRef

The reference to the Java configuration object for the computation of semantic similarity between groups of concepts

ontology

The ontology to compute semantic similarities

Examples

sim <- new('Similarity')

Onassis documentation built on Nov. 8, 2020, 8:18 p.m.