notlath/BioBERT_Symptom2Disease_dataset
Browse files- README.md +74 -0
- config.json +45 -0
- model.safetensors +3 -0
- tokenizer.json +0 -0
- tokenizer_config.json +14 -0
- training_args.bin +3 -0
README.md
ADDED
|
@@ -0,0 +1,74 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
---
|
| 2 |
+
library_name: transformers
|
| 3 |
+
base_model: dmis-lab/biobert-v1.1
|
| 4 |
+
tags:
|
| 5 |
+
- generated_from_trainer
|
| 6 |
+
metrics:
|
| 7 |
+
- accuracy
|
| 8 |
+
model-index:
|
| 9 |
+
- name: BioBERT_Symptom2Disease_dataset
|
| 10 |
+
results: []
|
| 11 |
+
---
|
| 12 |
+
|
| 13 |
+
<!-- This model card has been generated automatically according to the information the Trainer had access to. You
|
| 14 |
+
should probably proofread and complete it, then remove this comment. -->
|
| 15 |
+
|
| 16 |
+
# BioBERT_Symptom2Disease_dataset
|
| 17 |
+
|
| 18 |
+
This model is a fine-tuned version of [dmis-lab/biobert-v1.1](https://huggingface.co/dmis-lab/biobert-v1.1) on an unknown dataset.
|
| 19 |
+
It achieves the following results on the evaluation set:
|
| 20 |
+
- Loss: 0.4577
|
| 21 |
+
- Accuracy: 0.9867
|
| 22 |
+
- F1 Macro: 0.9866
|
| 23 |
+
- Precision Macro: 0.9868
|
| 24 |
+
- Recall Macro: 0.9867
|
| 25 |
+
|
| 26 |
+
## Model description
|
| 27 |
+
|
| 28 |
+
More information needed
|
| 29 |
+
|
| 30 |
+
## Intended uses & limitations
|
| 31 |
+
|
| 32 |
+
More information needed
|
| 33 |
+
|
| 34 |
+
## Training and evaluation data
|
| 35 |
+
|
| 36 |
+
More information needed
|
| 37 |
+
|
| 38 |
+
## Training procedure
|
| 39 |
+
|
| 40 |
+
### Training hyperparameters
|
| 41 |
+
|
| 42 |
+
The following hyperparameters were used during training:
|
| 43 |
+
- learning_rate: 0.00010665073784797153
|
| 44 |
+
- train_batch_size: 4
|
| 45 |
+
- eval_batch_size: 8
|
| 46 |
+
- seed: 42
|
| 47 |
+
- gradient_accumulation_steps: 8
|
| 48 |
+
- total_train_batch_size: 32
|
| 49 |
+
- optimizer: Use OptimizerNames.ADAMW_TORCH_FUSED with betas=(0.9,0.999) and epsilon=1e-08 and optimizer_args=No additional optimizer arguments
|
| 50 |
+
- lr_scheduler_type: cosine
|
| 51 |
+
- lr_scheduler_warmup_steps: 65
|
| 52 |
+
- num_epochs: 10
|
| 53 |
+
- label_smoothing_factor: 0.1
|
| 54 |
+
|
| 55 |
+
### Training results
|
| 56 |
+
|
| 57 |
+
| Training Loss | Epoch | Step | Validation Loss | Accuracy | F1 Macro | Precision Macro | Recall Macro |
|
| 58 |
+
|:-------------:|:-----:|:----:|:---------------:|:--------:|:--------:|:---------------:|:------------:|
|
| 59 |
+
| 10.2542 | 1.0 | 66 | 0.6162 | 0.9289 | 0.9297 | 0.9366 | 0.9289 |
|
| 60 |
+
| 4.3535 | 2.0 | 132 | 0.5109 | 0.9644 | 0.9643 | 0.9667 | 0.9644 |
|
| 61 |
+
| 3.8697 | 3.0 | 198 | 0.4679 | 0.9867 | 0.9867 | 0.9871 | 0.9867 |
|
| 62 |
+
| 3.5071 | 4.0 | 264 | 0.4744 | 0.9822 | 0.9823 | 0.9826 | 0.9822 |
|
| 63 |
+
| 3.3928 | 5.0 | 330 | 0.4572 | 0.9889 | 0.9888 | 0.9890 | 0.9889 |
|
| 64 |
+
| 3.3732 | 6.0 | 396 | 0.4714 | 0.98 | 0.9800 | 0.9802 | 0.98 |
|
| 65 |
+
| 3.3737 | 7.0 | 462 | 0.4599 | 0.9844 | 0.9844 | 0.9845 | 0.9844 |
|
| 66 |
+
| 3.3634 | 8.0 | 528 | 0.4577 | 0.9867 | 0.9866 | 0.9868 | 0.9867 |
|
| 67 |
+
|
| 68 |
+
|
| 69 |
+
### Framework versions
|
| 70 |
+
|
| 71 |
+
- Transformers 5.3.0
|
| 72 |
+
- Pytorch 2.11.0+cu130
|
| 73 |
+
- Datasets 4.8.4
|
| 74 |
+
- Tokenizers 0.22.2
|
config.json
ADDED
|
@@ -0,0 +1,45 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"add_cross_attention": false,
|
| 3 |
+
"architectures": [
|
| 4 |
+
"BertForSequenceClassification"
|
| 5 |
+
],
|
| 6 |
+
"attention_probs_dropout_prob": 0.1,
|
| 7 |
+
"bos_token_id": null,
|
| 8 |
+
"classifier_dropout": null,
|
| 9 |
+
"dtype": "float32",
|
| 10 |
+
"eos_token_id": null,
|
| 11 |
+
"gradient_checkpointing": false,
|
| 12 |
+
"hidden_act": "gelu",
|
| 13 |
+
"hidden_dropout_prob": 0.1,
|
| 14 |
+
"hidden_size": 768,
|
| 15 |
+
"id2label": {
|
| 16 |
+
"0": 0,
|
| 17 |
+
"1": 1,
|
| 18 |
+
"2": 2,
|
| 19 |
+
"3": 3,
|
| 20 |
+
"4": 4,
|
| 21 |
+
"5": 5
|
| 22 |
+
},
|
| 23 |
+
"initializer_range": 0.02,
|
| 24 |
+
"intermediate_size": 3072,
|
| 25 |
+
"is_decoder": false,
|
| 26 |
+
"label2id": {
|
| 27 |
+
"0": 0,
|
| 28 |
+
"1": 1,
|
| 29 |
+
"2": 2,
|
| 30 |
+
"3": 3,
|
| 31 |
+
"4": 4,
|
| 32 |
+
"5": 5
|
| 33 |
+
},
|
| 34 |
+
"layer_norm_eps": 1e-12,
|
| 35 |
+
"max_position_embeddings": 512,
|
| 36 |
+
"model_type": "bert",
|
| 37 |
+
"num_attention_heads": 12,
|
| 38 |
+
"num_hidden_layers": 12,
|
| 39 |
+
"pad_token_id": 0,
|
| 40 |
+
"tie_word_embeddings": true,
|
| 41 |
+
"transformers_version": "5.3.0",
|
| 42 |
+
"type_vocab_size": 2,
|
| 43 |
+
"use_cache": false,
|
| 44 |
+
"vocab_size": 28996
|
| 45 |
+
}
|
model.safetensors
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:50e43ae6550f6ee861ccaa6ee80086cd71d573374abd362579d02ff1f72fc1d8
|
| 3 |
+
size 433283048
|
tokenizer.json
ADDED
|
The diff for this file is too large to render.
See raw diff
|
|
|
tokenizer_config.json
ADDED
|
@@ -0,0 +1,14 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"backend": "tokenizers",
|
| 3 |
+
"cls_token": "[CLS]",
|
| 4 |
+
"do_lower_case": false,
|
| 5 |
+
"is_local": false,
|
| 6 |
+
"mask_token": "[MASK]",
|
| 7 |
+
"model_max_length": 512,
|
| 8 |
+
"pad_token": "[PAD]",
|
| 9 |
+
"sep_token": "[SEP]",
|
| 10 |
+
"strip_accents": null,
|
| 11 |
+
"tokenize_chinese_chars": true,
|
| 12 |
+
"tokenizer_class": "BertTokenizer",
|
| 13 |
+
"unk_token": "[UNK]"
|
| 14 |
+
}
|
training_args.bin
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:b23e1647d0882ca1b9a48c0ea4929f6715b9d236fe641e58b6e642032e0a08cb
|
| 3 |
+
size 5265
|