Table 1 Summary of the results for each algorithm, in the 20 genomes with 500 genes dataset.
From: Reconstruction of ancestral gene orders using intermediate genomes
Diameter | D= 1n | D= 2n | D= 3n | D= 4n | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
Results (%) | TP | FN | FP | TP | FN | FP | TP | FN | FP | TP | FN | FP |
Homology methods | ||||||||||||
SCJ | 77.5 | 21.5 | 0.0 | 61.0 | 38.0 | 0.0 | 48.9 | 50.1 | 0.0 | 38.7 | 60.3 | 0.1 |
ProCARs | 90.2 | 8.8 | 0.4 | 77.6 | 21.4 | 0.7 | 63.7 | 35.3 | 1.2 | 48.6 | 50.4 | 1.9 |
IG-Pure | 90.3 | 8.7 | 0.2 | 76.6 | 22.4 | 0.5 | 62.8 | 36.2 | 1.0 | 47.5 | 51.5 | 1.9 |
IG-SCJ | 91.4 | 7.6 | 0.2 | 78.1 | 20.9 | 0.5 | 64.7 | 34.3 | 1.1 | 48.8 | 50.2 | 1.9 |
IG-ProCARs | 92.3 | 6.7 | 0.3 | 80.3 | 18.7 | 0.7 | 66.3 | 32.7 | 1.6 | 50.7 | 48.3 | 2.8 |
IG-Perfect | 95.4 | 3.6 | 0.1 | 90.5 | 8.5 | 0.2 | 82.0 | 17.0 | 0.3 | 71.7 | 27.3 | 0.5 |
Distance methods | ||||||||||||
GASTS | 95.6 | 3.4 | 3.4 | 87.3 | 11.7 | 11.7 | 73.8 | 25.2 | 25.2 | 57.3 | 41.7 | 41.7 |
PATHGROUPS | 94.7 | 4.3 | 4.7 | 82.6 | 16.4 | 16.9 | 69.0 | 30.0 | 30.5 | 54.2 | 44.8 | 45.3 |
IG-Pure | 94.7 | 4.3 | 4.3 | 87.1 | 11.9 | 12.1 | 75.7 | 23.3 | 23.6 | 62.2 | 36.8 | 37.2 |
IG-SCJ | 95.4 | 3.6 | 3.7 | 88.3 | 10.7 | 10.9 | 77.0 | 22.0 | 22.2 | 63.1 | 35.9 | 36.3 |
IG-ProCARs | 95.8 | 3.2 | 3.3 | 89.3 | 9.7 | 9.9 | 78.8 | 20.2 | 20.4 | 65.1 | 33.9 | 34.2 |
IG-Perfect | 96.7 | 2.3 | 2.4 | 93.3 | 5.7 | 5.8 | 86.0 | 13.0 | 13.3 | 75.4 | 23.6 | 24.0 |