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Contingency table for comparing learned networks to KEGG pathways.
| Learned Network | |||
| Ideal (KEGG pathway) | Edge in network | Yes | No |
| Yes | TP = |EL| ⋂ |EI| | FN = |EI| - TP | |
| No | FP = |EL| - TP | TN = [(|VI|•|VI - 1|)/2] - FN | |
Here EL and EI represent the edges in the learned and ideal graphs, respectively, where the ideal graphs are those derived from the KEGG pathways; VI is the set of nodes (vertices) in the ideal graph.
