---
license: apache-2.0
base_model: bert-base-uncased
tags:
- generated_from_trainer
metrics:
- precision
- recall
- f1
- accuracy
model-index:
- name: bio-bert
  results: []
---

<!-- 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. -->

# bio-bert

This model is a fine-tuned version of [bert-base-uncased](https://huggingface.co/bert-base-uncased) on the None dataset.
It achieves the following results on the evaluation set:
- Loss: 0.0000
- Precision: 1.0
- Recall: 1.0
- F1: 1.0
- Accuracy: 1.0
- All Metrics: {'CELL': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 6270}, 'CHEMICAL': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 34547}, 'CORONAVIRUS': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 4777}, 'DISEASE_OR_SYNDROME': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 13422}, 'EUKARYOTE': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 2501}, 'GENE_OR_GENOME': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 32504}, 'ORGANISM': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 4620}, 'THERAPEUTIC_OR_PREVENTIVE_PROCEDURE': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 3186}, 'TISSUE': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 2333}, 'VIRUS': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 1596}, 'overall_precision': 1.0, 'overall_recall': 1.0, 'overall_f1': 1.0, 'overall_accuracy': 1.0}

## 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: 8
- eval_batch_size: 8
- seed: 42
- 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 | Precision | Recall | F1     | Accuracy | All Metrics                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              |
|:-------------:|:-----:|:-----:|:---------------:|:---------:|:------:|:------:|:--------:|:------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------:|
| 0.0003        | 1.0   | 3375  | 0.0001          | 0.9999    | 1.0000 | 0.9999 | 1.0000   | {'CELL': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 6270}, 'CHEMICAL': {'precision': 0.9999131693198263, 'recall': 1.0, 'f1': 0.9999565827749395, 'number': 34547}, 'CORONAVIRUS': {'precision': 0.9989539748953975, 'recall': 0.9995813271927988, 'f1': 0.9992675525792613, 'number': 4777}, 'DISEASE_OR_SYNDROME': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 13422}, 'EUKARYOTE': {'precision': 0.9992006394884093, 'recall': 0.9996001599360256, 'f1': 0.9994003597841296, 'number': 2501}, 'GENE_OR_GENOME': {'precision': 0.9998769457946225, 'recall': 0.999938469111494, 'f1': 0.9999077065066913, 'number': 32504}, 'ORGANISM': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 4620}, 'THERAPEUTIC_OR_PREVENTIVE_PROCEDURE': {'precision': 0.9996862252902416, 'recall': 1.0, 'f1': 0.9998430880276166, 'number': 3186}, 'TISSUE': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 2333}, 'VIRUS': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 1596}, 'overall_precision': 0.9998581774861487, 'overall_recall': 0.999952721358599, 'overall_f1': 0.9999054471875266, 'overall_accuracy': 0.9999971807367637} |
| 0.0001        | 2.0   | 6750  | 0.0000          | 1.0       | 1.0    | 1.0    | 1.0      | {'CELL': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 6270}, 'CHEMICAL': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 34547}, 'CORONAVIRUS': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 4777}, 'DISEASE_OR_SYNDROME': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 13422}, 'EUKARYOTE': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 2501}, 'GENE_OR_GENOME': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 32504}, 'ORGANISM': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 4620}, 'THERAPEUTIC_OR_PREVENTIVE_PROCEDURE': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 3186}, 'TISSUE': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 2333}, 'VIRUS': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 1596}, 'overall_precision': 1.0, 'overall_recall': 1.0, 'overall_f1': 1.0, 'overall_accuracy': 1.0}                                                                                                                                                                                                                                                              |
| 0.0           | 3.0   | 10125 | 0.0000          | 1.0       | 1.0    | 1.0    | 1.0      | {'CELL': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 6270}, 'CHEMICAL': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 34547}, 'CORONAVIRUS': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 4777}, 'DISEASE_OR_SYNDROME': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 13422}, 'EUKARYOTE': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 2501}, 'GENE_OR_GENOME': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 32504}, 'ORGANISM': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 4620}, 'THERAPEUTIC_OR_PREVENTIVE_PROCEDURE': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 3186}, 'TISSUE': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 2333}, 'VIRUS': {'precision': 1.0, 'recall': 1.0, 'f1': 1.0, 'number': 1596}, 'overall_precision': 1.0, 'overall_recall': 1.0, 'overall_f1': 1.0, 'overall_accuracy': 1.0}                                                                                                                                                                                                                                                              |


### Framework versions

- Transformers 4.35.2
- Pytorch 2.1.1+cu121
- Datasets 2.15.0
- Tokenizers 0.15.0