|
--- |
|
language: |
|
- en |
|
license: apache-2.0 |
|
library_name: transformers |
|
tags: |
|
- generated_from_trainer |
|
- medical |
|
datasets: |
|
- opentargets/clinical_trial_reason_to_stop |
|
metrics: |
|
- accuracy |
|
widget: |
|
- text: Study stopped due to problems to recruit patients |
|
example_title: Enrollment issues |
|
- text: Efficacy endpoint unmet |
|
example_title: Negative reasons |
|
- text: Study stopped due to unexpected adverse effects |
|
example_title: Safety |
|
- text: Study paused due to the pandemic |
|
example_title: COVID-19 |
|
base_model: bert-base-uncased |
|
model-index: |
|
- name: stop_reasons_classificator_multilabel |
|
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. --> |
|
|
|
# Clinical trial stop reasons |
|
|
|
This model is a fine-tuned version of [bert-base-uncased](https://huggingface.co./bert-base-uncased) on the task of classification of why a clinical trial has stopped early. |
|
|
|
The dataset containing 3,747 manually curated reasons used for fine-tuning is available in the [Hub](https://huggingface.co./datasets/opentargets/clinical_trial_reason_to_stop). |
|
|
|
More details on the model training are available in the GitHub project ([link](https://github.com/opentargets/stopReasons)) and in the associated publication (DOI: 10.1038/s41588-024-01854-z). |
|
|
|
|
|
## Training procedure |
|
|
|
### Training hyperparameters |
|
|
|
The following hyperparameters were used during training: |
|
- learning_rate: 5e-05 |
|
- train_batch_size: 32 |
|
- eval_batch_size: 32 |
|
- seed: 42 |
|
- optimizer: Adam with betas=(0.9,0.999) and epsilon=1e-08 |
|
- lr_scheduler_type: linear |
|
- num_epochs: 7 |
|
|
|
### Training results |
|
|
|
| Training Loss | Epoch | Step | Validation Loss | Accuracy Thresh | |
|
|:-------------:|:-----:|:----:|:---------------:|:---------------:| |
|
| No log | 1.0 | 106 | 0.1824 | 0.9475 | |
|
| No log | 2.0 | 212 | 0.1339 | 0.9630 | |
|
| No log | 3.0 | 318 | 0.1109 | 0.9689 | |
|
| No log | 4.0 | 424 | 0.0988 | 0.9741 | |
|
| 0.1439 | 5.0 | 530 | 0.0943 | 0.9743 | |
|
| 0.1439 | 6.0 | 636 | 0.0891 | 0.9763 | |
|
| 0.1439 | 7.0 | 742 | 0.0899 | 0.9760 | |
|
|
|
|
|
### Framework versions |
|
|
|
- Transformers 4.26.0 |
|
- Pytorch 1.12.1+cu102 |
|
- Datasets 2.9.0 |
|
- Tokenizers 0.13.2 |
