Table 1.
Comparison of predictors on a validation set
| NONTMBB1K (121 TMBBs/1,000 non-TMBBs) |
|||||
|---|---|---|---|---|---|
| Algorithm | MCC | TP | TN | FP | FN |
| IsItABarrel | 0.926 | 113 | 992 | 8 | 8 |
| BOMP | 0.846 | 112 | 973 | 27 | 9 |
| FW-BB Analysis | 0.728 | 102 | 953 | 47 | 19 |
| PRED-TMBB2 | 0.796 | 118 | 947 | 53 | 3 |
NONTMBB1K, includes 121 nonhomologous TMBBs as positive examples and 1,000 nonhomologous non-TMBBs as the negative set. IsItABarrel (top row) provides the lowest number of false positives and intermediate performance for true positives. TP – true positives; TN – true negatives; FP – false positives; FN – false negatives. Matthews’ correlation coefficient (MCC) calculated as: MCC = (TP × TN – FP × FN)/SQRT[(TP + FP) × (TP + FN) × (TN + FP) × (TN + FN)].