| GOSemSim-package | Gene Ontology-based Sematic Similarity Measures |
| clusterSim | Semantic Similarity Between Two Gene Clusters |
| combineScores | combining similarity matrix to similarity score |
| geneSim | Semantic Similarity Between two Genes |
| GO | Information content of GO terms |
| godata | godata |
| GOSemSim | Gene Ontology-based Sematic Similarity Measures |
| GOSemSimDATA-class | Class "GOSemSimDATA" This class stores IC and gene to go mapping for semantic similarity measurement |
| goSim | Semantic Similarity Between Two GO Terms |
| gotbl | Information content of GO terms |
| go_term_table | Information content of GO terms |
| infoContentMethod | information content based methods |
| load_OrgDb | load_OrgDb |
| mclusterSim | Pairwise Semantic Similarities for a List of Gene Clusters |
| mgeneSim | Pairwise Semantic Similarity for a List of Genes |
| mgoSim | Semantic Similarity Between two GO terms lists |
| show-method | Class "GOSemSimDATA" This class stores IC and gene to go mapping for semantic similarity measurement |
| tcss_cutoff | determine the topological cutoff for TCSS method |
| termSim | termSim |
| wangMethod_internal | wangMethod |