Table 5. The seven algorithms tested, whether they use negative examples, the parameters they use, and the values of the parameters tested.
| Algorithm | Uses negative examples | Parameters | Values tested |
| SinkSource | Yes | None | |
| Local | Yes | None | |
| Hopfield | Yes | None | |
| Local+ | No | None | |
| SinkSource+ | No | λ = weight of edges incident on artificial negative example | 0.01. 0.1, 0.5, 1, 2, 10, and 100 |
| FunctionalFlow | No | Number of phases | 1, 3, 5, 7 |
| PRINCE | No | α = trade-off between contributions from neighbors and prior information | 0.1 to 0.9 in steps of 0.1 |