OWLSim Ontology Based Profile Matching
OWLSim is a Java library and set of command-line tools for calculating semantic similarity between ontology classes and individuals. Part of the OWLTools suite, OWLSim implements various semantic similarity algorithms including Information Content-based methods for comparing phenotypes, diseases, and other ontology-based profiles. It is extensively used by the Monarch Initiative for phenotype matching, disease gene prioritization, and model organism comparison. OWLSim enables researchers to find similar disease profiles, identify candidate genes based on phenotypic similarity, and connect human diseases with model organism phenotypes using semantic similarity metrics across biological ontologies.
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