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