Table 13.
BiLSTM tuning parameters and resulting tuning F1 scores that are used for the BiLSTM-CRF and Char-Embeddings models also
| Ontology | Batch size | # Epochs | # Neurons | Time (h) | Memory (GBs) | F1 score (macro) | F1 score (micro) |
|---|---|---|---|---|---|---|---|
| ChEBI | 53 | 10 | 12 | 99 | 6.5 | 0.67 | > 0.99 |
| CL | 36 | 10 | 12 | 92 | 6.5 | 0.74 | > 0.99 |
| GO_BP | 36 | 10 | 12 | 99 | 6.5 | 0.68 | > 0.99 |
| GO_CC | 106 | 100 | 12 | 97 | 6.5 | 0.66 | > 0.99 |
| GO_MF | 106 | 10 | 3 | 108 | 8.4 | 0.99 | > 0.99 |
| MOP | 106 | 10 | 12 | 99 | 6.4 | 0.61 | > 0.99 |
| NCBITaxon | 106 | 100 | 12 | 95 | 6.5 | 0.96 | > 0.99 |
| PR | 36 | 10 | 12 | 95 | 6.5 | 0.71 | > 0.99 |
| SO | 36 | 100 | 12 | 98 | 6.5 | 0.66 | > 0.99 |
| UBERON | 18 | 10 | 12 | 97 | 6.5 | 0.68 | > 0.99 |