Instructions to use multimolecule/proteinbert with libraries, inference providers, notebooks, and local apps. Follow these links to get started.
- Libraries
- MultiMolecule
How to use multimolecule/proteinbert with MultiMolecule:
pip install multimolecule
from multimolecule import AutoModel, AutoTokenizer tokenizer = AutoTokenizer.from_pretrained("multimolecule/proteinbert") model = AutoModel.from_pretrained("multimolecule/proteinbert") inputs = tokenizer("MANLGCWMLVLFVATWSDLGLCKKRPKPGGWNTGGSRYPGQGSPGGNRYPPQGGGGWGQPHGGGWGQPHGGGWGQPHGGGWGQPHGGGWGQGGGTHSQWNKPSKPKTNMKHMAGAAAAGAVVGGLGGYMLGSAMSRPIIHFGSDYEDRYYRENMHRYPNQVYYRPMDEYSNQNNFVHDCVNITIKQHTVTTTTKGENFTETDVKMMERVVEQMCITQYERESQAYYQRGSSMVLFSSPPVILLISFLIFLIVG", return_tensors="pt") outputs = model(**inputs) embeddings = outputs.last_hidden_stateimport multimolecule from transformers import pipeline predictor = pipeline("fill-mask", model="multimolecule/proteinbert") output = predictor("MANLGCWMLVLFV<mask>TWSDLGLCKKRPKPGGWNTGGSRYPGQGSPGGNRYPPQGGGGWGQPHGGGWGQPHGGGWGQPHGGGWGQPHGGGWGQGGGTHSQWNKPSKPKTNMKHMAGAAAAGAVVGGLGGYMLGSAMSRPIIHFGSDYEDRYYRENMHRYPNQVYYRPMDEYSNQNNFVHDCVNITIKQHTVTTTTKGENFTETDVKMMERVVEQMCITQYERESQAYYQRGSSMVLFSSPPVILLISFLIFLIVG") - Notebooks
- Google Colab
- Kaggle
| { | |
| "annotation_size": 8943, | |
| "architectures": [ | |
| "ProteinBertForPreTraining" | |
| ], | |
| "attention_key_size": 64, | |
| "bos_token_id": 1, | |
| "conv_kernel_size": 9, | |
| "dtype": "float32", | |
| "eos_token_id": 2, | |
| "global_hidden_size": 512, | |
| "head": null, | |
| "hidden_act": "gelu", | |
| "hidden_size": 128, | |
| "id2label": null, | |
| "initializer_range": 0.02, | |
| "label2id": null, | |
| "layer_norm_eps": 0.001, | |
| "lm_head": { | |
| "act": null, | |
| "bias": true, | |
| "dropout": 0.0, | |
| "hidden_size": null, | |
| "layer_norm_eps": 1e-12, | |
| "loss_weight": null, | |
| "num_labels": 37, | |
| "output_name": null, | |
| "transform": null, | |
| "transform_act": null | |
| }, | |
| "mask_token_id": 4, | |
| "model_type": "proteinbert", | |
| "null_token_id": 5, | |
| "num_attention_heads": 4, | |
| "num_hidden_layers": 6, | |
| "num_labels": 1, | |
| "pad_token_id": 0, | |
| "tie_word_embeddings": false, | |
| "transformers_version": "5.9.0", | |
| "unk_token_id": 3, | |
| "vocab_size": 37, | |
| "wide_conv_dilation_rate": 5 | |
| } | |