Table 3.
Input window sizes and prediction approach of each method. The classification of query proteins as epitopes can generally be performed in either a “per residue” or a “per peptide” basis. In the “per residue” methods each separate residue of a protein is assigned an antigenicity score, while in the “per peptide” methods, a prediction is limited within fixed windows sizes.
| Predictor | Prediction | Window Size |
|---|---|---|
| ABCpred | Per peptide | 10, 12, 14, 16, 18, 20 |
| SVMTriP | Per peptide | 10, 12, 14, 16, 18, 20 |
| LBEEP | Per peptide | 5–15 |
| BcePred | Per residue | - |
| BepiPred-1.0 | Per residue | - |
| COBEpro | Per residue | - |
| LBtope | Per residue | - |