def setUp(self): self.go_graph = OntoIO.read("Ontology/go_test.obo", "obo") self.assocs = OntoIO.read("Ontology/ga_test.fb", "gaf") self.ef = TermForTermEnrichmentFinder(self.assocs, self.go_graph)
def run_term(assocs, go_graph, gene_list, corrections): from Bio.Ontology import TermForTermEnrichmentFinder ef = TermForTermEnrichmentFinder(assocs, go_graph) result = ef.find_enrichment(gene_list, corrections) return result