| language: en | |
| license: mit | |
| datasets: | |
| - ronig/protein_binding_sequences | |
| # Protein BiEncoder Bert Model | |
| Usage | |
| ```python | |
| tokenizer = AutoTokenizer.from_pretrained("ronig/protein_biencoder") | |
| model = BiEncoder.from_pretrained("ronig/protein_biencoder") | |
| model.eval() | |
| peptide_sequence = "AAA" | |
| protein_sequence = "MMM" | |
| encoded_peptide = tokenizer.encode_plus(peptide_sequence, return_tensors='pt') | |
| encoded_protein = tokenizer.encode_plus(protein_sequence, return_tensors='pt') | |
| with torch.no_grad(): | |
| peptide_output = model.forward1(encoded_peptide) | |
| protein_output = model.forward2(encoded_protein) | |
| print("distance: ", torch.norm(peptide_output - protein_output, p=2)) | |
| ``` | |
| Model checkpint: `peptriever_2023-06-23T16:07:24.508460` |