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biobert-main
AhmedJaber/biobert-main
biobert-main is a token classification model from AhmedJaber. Use it when you need labels on individual words, such as names. It is set up for transformers.
should probably proofread and complete it, then remove this comment. --
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At a glance
- Task
- Token Classification
- Library
- transformers
- Model type
- bert
- Access
- Public
- Created
- Apr 29, 2026
- Updated
- Apr 29, 2026
- SHA
- ff9f5f71
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Base models
Model card
From the Hugging Face model README
<!-- This model card has been generated automatically according to the information the Trainer had access to. You
should probably proofread and complete it, then remove this comment. -->
biobert-main
This model is a fine-tuned version of dmis-lab/biobert-v1.1 on an unknown dataset. It achieves the following results on the evaluation set:
- Loss: 0.1643
- Precision: 0.8830
- Recall: 0.9234
- F1: 0.9027
- Chemical F1: 0.9493
- Disease F1: 0.8022
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: 32
- eval_batch_size: 64
- seed: 42
- optimizer: Use OptimizerNames.ADAMW_TORCH_FUSED with betas=(0.9,0.999) and epsilon=1e-08 and optimizer_args=No additional optimizer arguments
- lr_scheduler_type: linear
- lr_scheduler_warmup_steps: 0.1
- num_epochs: 5
- mixed_precision_training: Native AMP
Training results
| Training Loss | Epoch | Step | Validation Loss | Precision | Recall | F1 | Chemical F1 | Disease F1 |
|---|---|---|---|---|---|---|---|---|
| 0.2012 | 1.0 | 164 | 0.1557 | 0.8562 | 0.9151 | 0.8847 | 0.9345 | 0.7752 |
| 0.1033 | 2.0 | 328 | 0.1323 | 0.8933 | 0.9112 | 0.9022 | 0.9490 | 0.7950 |
| 0.0627 | 3.0 | 492 | 0.1538 | 0.8743 | 0.9307 | 0.9016 | 0.9521 | 0.7966 |
| 0.0354 | 4.0 | 656 | 0.1642 | 0.8831 | 0.9234 | 0.9028 | 0.9494 | 0.8022 |
| 0.0281 | 5.0 | 820 | 0.1769 | 0.8778 | 0.9265 | 0.9015 | 0.9493 | 0.8006 |
Framework versions
- Transformers 5.0.0
- Pytorch 2.10.0+cu128
- Datasets 4.8.3
- Tokenizers 0.22.2
- Task
- Token Classification
- Library
- transformers
- Type
- bert
- Created
- Apr 29, 2026
- Updated
- Apr 29, 2026