Ontologizer 3: a cross-platform desktop application for frequentist and Bayesian GO enrichment analysis (opens in new tab)

We present Ontologizer 3, an easy-to-use cross-platform desktop application for Gene Ontology (GO) overrepresentation analysis. Ontologizer 3 offers two complementary methods. The first is a frequentist approach that evaluates GO terms individually using a one-sided Fisher's exact test, yielding term-level significance values. The second is a Bayesian approach that jointly evaluates terms using model-based gene set analysis (MGSA), yielding term-level posterior probabilities. Due to substanti...