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--- |
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base_model: medicalai/ClinicalBERT |
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tags: |
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- generated_from_trainer |
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model-index: |
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- name: CRAFT_ClinicalBERT_NER |
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results: [] |
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--- |
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<!-- This model card has been generated automatically according to the information the Trainer had access to. You |
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should probably proofread and complete it, then remove this comment. --> |
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# CRAFT_ClinicalBERT_NER |
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This model is a fine-tuned version of [medicalai/ClinicalBERT](https://huggingface.co/medicalai/ClinicalBERT) on the None dataset. |
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It achieves the following results on the evaluation set: |
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- Loss: 0.1733 |
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- Seqeval classification report: precision recall f1-score support |
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CHEBI 0.68 0.66 0.67 1365 |
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CL 0.55 0.50 0.52 284 |
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GGP 0.87 0.81 0.84 4632 |
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GO 0.66 0.65 0.65 8852 |
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SO 0.68 0.50 0.58 616 |
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Taxon 0.81 0.73 0.77 986 |
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micro avg 0.72 0.69 0.71 16735 |
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macro avg 0.71 0.64 0.67 16735 |
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weighted avg 0.73 0.69 0.71 16735 |
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## Model description |
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More information needed |
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## Intended uses & limitations |
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More information needed |
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## Training and evaluation data |
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More information needed |
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## Training procedure |
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### Training hyperparameters |
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The following hyperparameters were used during training: |
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- learning_rate: 2e-05 |
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- train_batch_size: 16 |
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- eval_batch_size: 16 |
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- seed: 42 |
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- gradient_accumulation_steps: 2 |
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- total_train_batch_size: 32 |
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- optimizer: Adam with betas=(0.9,0.999) and epsilon=1e-08 |
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- lr_scheduler_type: linear |
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- num_epochs: 3 |
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### Training results |
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| Training Loss | Epoch | Step | Validation Loss | Seqeval classification report | |
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|:-------------:|:-----:|:----:|:---------------:|:--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------:| |
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| No log | 1.0 | 347 | 0.1894 | precision recall f1-score support |
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CHEBI 0.64 0.56 0.60 1365 |
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CL 0.53 0.35 0.42 284 |
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GGP 0.84 0.77 0.81 4632 |
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GO 0.60 0.61 0.60 8852 |
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SO 0.53 0.46 0.49 616 |
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Taxon 0.78 0.66 0.71 986 |
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micro avg 0.68 0.64 0.66 16735 |
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macro avg 0.65 0.57 0.61 16735 |
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weighted avg 0.68 0.64 0.66 16735 |
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| 0.2231 | 2.0 | 695 | 0.1740 | precision recall f1-score support |
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CHEBI 0.69 0.63 0.66 1365 |
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CL 0.56 0.44 0.49 284 |
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GGP 0.83 0.79 0.81 4632 |
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GO 0.65 0.65 0.65 8852 |
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SO 0.68 0.47 0.55 616 |
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Taxon 0.81 0.72 0.76 986 |
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micro avg 0.71 0.68 0.69 16735 |
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macro avg 0.70 0.62 0.65 16735 |
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weighted avg 0.71 0.68 0.69 16735 |
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| 0.0813 | 3.0 | 1041 | 0.1733 | precision recall f1-score support |
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CHEBI 0.68 0.66 0.67 1365 |
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CL 0.55 0.50 0.52 284 |
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GGP 0.87 0.81 0.84 4632 |
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GO 0.66 0.65 0.65 8852 |
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SO 0.68 0.50 0.58 616 |
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Taxon 0.81 0.73 0.77 986 |
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micro avg 0.72 0.69 0.71 16735 |
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macro avg 0.71 0.64 0.67 16735 |
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weighted avg 0.73 0.69 0.71 16735 |
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### Framework versions |
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- Transformers 4.35.2 |
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- Pytorch 2.1.0+cu121 |
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- Datasets 2.15.0 |
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- Tokenizers 0.15.0 |
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