Merge pull request #60 from INCATools/transitive-reduction-patch

Transitive reduction patch
INCATools · Feb 8, 2024 · cffcc6d · cffcc6d
2 parents 9521dd4 + a467f15
commit cffcc6d
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diff --git a/pandasaurus_cxg/graph_generator/graph_generator.py b/pandasaurus_cxg/graph_generator/graph_generator.py
@@ -6,6 +6,7 @@
 import matplotlib.pyplot as plt
 import networkx as nx
 import pandas as pd
+from pandasaurus.graph.graph_generator import GraphGenerator as graphgen
 from rdflib import OWL, RDF, RDFS, BNode, Graph, Literal, Namespace, URIRef
 from rdflib.plugins.sparql import prepareQuery
 
@@ -162,6 +163,9 @@ def generate_rdf_graph(self):
                 for s, _, _ in self.graph.triples((None, predicate, Literal(iv))):
                     self.graph.add((resource, subcluster, s))
 
+        # transitive reduction step
+        self.graph = graphgen.apply_transitive_reduction(self.graph, [subcluster.toPython()])
+
     def enrich_rdf_graph(self):
         """
         Enrich RDF graph with enriched DataFrame from AnndataEnricher