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blaze999
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clinical-ner

Token Classification
Transformers
TensorBoard
Safetensors
deberta-v2
Generated from Trainer
Inference Endpoints
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Files changed (10) hide show
  1. README.md +114 -0
  2. added_tokens.json +3 -0
  3. config.json +205 -0
  4. model.safetensors +3 -0
  5. runs/Feb13_07-07-02_d318ae9f03d8/events.out.tfevents.1707808031.d318ae9f03d8.34.0 +3 -0
  6. special_tokens_map.json +15 -0
  7. spm.model +3 -0
  8. tokenizer.json +0 -0
  9. tokenizer_config.json +58 -0
  10. training_args.bin +3 -0
README.md ADDED
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+ ---
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+ license: mit
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+ base_model: microsoft/deberta-v3-base
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+ tags:
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+ - generated_from_trainer
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+ metrics:
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+ - precision
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+ - recall
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+ - f1
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+ - accuracy
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+ model-index:
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+ - name: clinical-ner
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+ results: []
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+ ---
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+
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+ <!-- This model card has been generated automatically according to the information the Trainer had access to. You
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+ should probably proofread and complete it, then remove this comment. -->
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+
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+ # clinical-ner
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+
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+ This model is a fine-tuned version of [microsoft/deberta-v3-base](https://huggingface.co/microsoft/deberta-v3-base) on the None dataset.
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+ It achieves the following results on the evaluation set:
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+ - Loss: 0.8058
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+ - Precision: 0.5786
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+ - Recall: 0.6683
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+ - F1: 0.6202
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+ - Accuracy: 0.8099
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+
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+ ## Model description
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+
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+ More information needed
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+
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+ ## Intended uses & limitations
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+
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+ More information needed
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+
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+ ## Training and evaluation data
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+
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+ More information needed
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+
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+ ## Training procedure
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+
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+ ### Training hyperparameters
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+
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+ The following hyperparameters were used during training:
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+ - learning_rate: 2e-05
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+ - train_batch_size: 16
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+ - eval_batch_size: 16
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+ - seed: 42
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+ - gradient_accumulation_steps: 2
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+ - total_train_batch_size: 32
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+ - optimizer: Adam with betas=(0.9,0.999) and epsilon=1e-08
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+ - lr_scheduler_type: cosine
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+ - lr_scheduler_warmup_ratio: 0.1
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+ - num_epochs: 45
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+ - mixed_precision_training: Native AMP
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+
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+ ### Training results
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+
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+ | Training Loss | Epoch | Step | Validation Loss | Precision | Recall | F1 | Accuracy |
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+ |:-------------:|:-----:|:----:|:---------------:|:---------:|:------:|:------:|:--------:|
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+ | No log | 1.0 | 5 | 4.7713 | 0.0002 | 0.001 | 0.0004 | 0.0182 |
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+ | No log | 2.0 | 10 | 4.2264 | 0.0002 | 0.0008 | 0.0003 | 0.1481 |
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+ | No log | 3.0 | 15 | 3.6238 | 0.0004 | 0.0003 | 0.0003 | 0.4575 |
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+ | 4.2324 | 4.0 | 20 | 2.8751 | 0.0 | 0.0 | 0.0 | 0.4734 |
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+ | 4.2324 | 5.0 | 25 | 2.4550 | 0.0306 | 0.0008 | 0.0015 | 0.4739 |
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+ | 4.2324 | 6.0 | 30 | 2.1920 | 0.0722 | 0.0437 | 0.0545 | 0.5007 |
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+ | 4.2324 | 7.0 | 35 | 1.9841 | 0.1137 | 0.1087 | 0.1112 | 0.5392 |
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+ | 2.3521 | 8.0 | 40 | 1.8153 | 0.1956 | 0.189 | 0.1922 | 0.5829 |
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+ | 2.3521 | 9.0 | 45 | 1.6504 | 0.2539 | 0.2617 | 0.2578 | 0.6218 |
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+ | 2.3521 | 10.0 | 50 | 1.4801 | 0.3607 | 0.3787 | 0.3695 | 0.6782 |
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+ | 2.3521 | 11.0 | 55 | 1.3417 | 0.3933 | 0.433 | 0.4122 | 0.7021 |
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+ | 1.6185 | 12.0 | 60 | 1.2333 | 0.4054 | 0.4795 | 0.4394 | 0.7203 |
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+ | 1.6185 | 13.0 | 65 | 1.1490 | 0.4307 | 0.5125 | 0.4680 | 0.7347 |
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+ | 1.6185 | 14.0 | 70 | 1.0750 | 0.4412 | 0.543 | 0.4868 | 0.7503 |
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+ | 1.6185 | 15.0 | 75 | 1.0179 | 0.4816 | 0.5637 | 0.5195 | 0.7619 |
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+ | 1.1438 | 16.0 | 80 | 0.9774 | 0.4899 | 0.578 | 0.5303 | 0.7689 |
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+ | 1.1438 | 17.0 | 85 | 0.9475 | 0.5005 | 0.5955 | 0.5439 | 0.7743 |
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+ | 1.1438 | 18.0 | 90 | 0.9192 | 0.5082 | 0.6078 | 0.5535 | 0.7788 |
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+ | 1.1438 | 19.0 | 95 | 0.8923 | 0.5151 | 0.6085 | 0.5579 | 0.7828 |
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+ | 0.8863 | 20.0 | 100 | 0.8691 | 0.5263 | 0.6242 | 0.5711 | 0.7882 |
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+ | 0.8863 | 21.0 | 105 | 0.8604 | 0.5358 | 0.6342 | 0.5809 | 0.7907 |
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+ | 0.8863 | 22.0 | 110 | 0.8474 | 0.5429 | 0.641 | 0.5879 | 0.7946 |
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+ | 0.8863 | 23.0 | 115 | 0.8362 | 0.5493 | 0.644 | 0.5929 | 0.7969 |
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+ | 0.7361 | 24.0 | 120 | 0.8284 | 0.5531 | 0.6512 | 0.5982 | 0.7994 |
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+ | 0.7361 | 25.0 | 125 | 0.8325 | 0.5555 | 0.6565 | 0.6018 | 0.8001 |
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+ | 0.7361 | 26.0 | 130 | 0.8156 | 0.5686 | 0.6562 | 0.6093 | 0.8035 |
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+ | 0.7361 | 27.0 | 135 | 0.8177 | 0.5634 | 0.6625 | 0.6089 | 0.8039 |
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+ | 0.6449 | 28.0 | 140 | 0.8152 | 0.5643 | 0.6567 | 0.6070 | 0.8036 |
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+ | 0.6449 | 29.0 | 145 | 0.8109 | 0.5700 | 0.6647 | 0.6137 | 0.8066 |
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+ | 0.6449 | 30.0 | 150 | 0.8164 | 0.5697 | 0.6653 | 0.6138 | 0.8055 |
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+ | 0.6449 | 31.0 | 155 | 0.8081 | 0.5742 | 0.6627 | 0.6153 | 0.8085 |
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+ | 0.5912 | 32.0 | 160 | 0.8130 | 0.5687 | 0.6677 | 0.6142 | 0.8067 |
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+ | 0.5912 | 33.0 | 165 | 0.8048 | 0.5779 | 0.6637 | 0.6179 | 0.8089 |
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+ | 0.5912 | 34.0 | 170 | 0.8096 | 0.5760 | 0.669 | 0.6190 | 0.8085 |
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+ | 0.5912 | 35.0 | 175 | 0.8063 | 0.5790 | 0.6677 | 0.6202 | 0.8091 |
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+ | 0.5625 | 36.0 | 180 | 0.8052 | 0.5755 | 0.6673 | 0.6180 | 0.8094 |
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+ | 0.5625 | 37.0 | 185 | 0.8063 | 0.5753 | 0.6667 | 0.6176 | 0.8093 |
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+ | 0.5625 | 38.0 | 190 | 0.8055 | 0.5783 | 0.6677 | 0.6198 | 0.8103 |
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+ | 0.5625 | 39.0 | 195 | 0.8052 | 0.5792 | 0.668 | 0.6205 | 0.8099 |
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+ | 0.5442 | 40.0 | 200 | 0.8052 | 0.5798 | 0.6685 | 0.6210 | 0.8097 |
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+ | 0.5442 | 41.0 | 205 | 0.8055 | 0.5784 | 0.6683 | 0.6201 | 0.8098 |
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+ | 0.5442 | 42.0 | 210 | 0.8056 | 0.5789 | 0.6685 | 0.6205 | 0.8100 |
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+ | 0.5442 | 43.0 | 215 | 0.8057 | 0.5786 | 0.6683 | 0.6202 | 0.8100 |
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+ | 0.5397 | 44.0 | 220 | 0.8057 | 0.5786 | 0.6683 | 0.6202 | 0.8099 |
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+ | 0.5397 | 45.0 | 225 | 0.8058 | 0.5786 | 0.6683 | 0.6202 | 0.8099 |
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+
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+
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+ ### Framework versions
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+
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+ - Transformers 4.37.0
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+ - Pytorch 2.1.2
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+ - Datasets 2.1.0
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+ - Tokenizers 0.15.1
added_tokens.json ADDED
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+ {
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+ "[MASK]": 128000
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+ }
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+ {
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+ "_name_or_path": "microsoft/deberta-v3-base",
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+ "architectures": [
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+ "DebertaV2ForTokenClassification"
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+ ],
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+ "attention_probs_dropout_prob": 0.1,
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+ "hidden_act": "gelu",
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+ "hidden_dropout_prob": 0.1,
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+ "hidden_size": 768,
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+ "id2label": {
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+ "0": "O",
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+ "1": "B-ACTIVITY",
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+ "2": "I-ACTIVITY",
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+ "3": "I-ADMINISTRATION",
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+ "4": "B-ADMINISTRATION",
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+ "5": "B-AGE",
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+ "6": "I-AGE",
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+ "7": "I-AREA",
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+ "8": "B-AREA",
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+ "9": "B-BIOLOGICAL_ATTRIBUTE",
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+ "10": "I-BIOLOGICAL_ATTRIBUTE",
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+ "11": "I-BIOLOGICAL_STRUCTURE",
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+ "12": "B-BIOLOGICAL_STRUCTURE",
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+ "13": "B-CLINICAL_EVENT",
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+ "14": "I-CLINICAL_EVENT",
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+ "15": "B-COLOR",
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+ "16": "I-COLOR",
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+ "17": "I-COREFERENCE",
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+ "18": "B-COREFERENCE",
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+ "19": "B-DATE",
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+ "20": "I-DATE",
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+ "21": "I-DETAILED_DESCRIPTION",
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+ "22": "B-DETAILED_DESCRIPTION",
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+ "23": "I-DIAGNOSTIC_PROCEDURE",
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+ "24": "B-DIAGNOSTIC_PROCEDURE",
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+ "25": "I-DISEASE_DISORDER",
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+ "26": "B-DISEASE_DISORDER",
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+ "27": "B-DISTANCE",
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+ "28": "I-DISTANCE",
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+ "29": "B-DOSAGE",
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+ "30": "I-DOSAGE",
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+ "31": "I-DURATION",
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+ "32": "B-DURATION",
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+ "33": "I-FAMILY_HISTORY",
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+ "34": "B-FAMILY_HISTORY",
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+ "35": "B-FREQUENCY",
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+ "36": "I-FREQUENCY",
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+ "37": "I-HEIGHT",
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+ "38": "B-HEIGHT",
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+ "39": "B-HISTORY",
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+ "40": "I-HISTORY",
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+ "41": "I-LAB_VALUE",
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+ "42": "B-LAB_VALUE",
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+ "43": "I-MASS",
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+ "44": "B-MASS",
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+ "45": "I-MEDICATION",
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+ "46": "B-MEDICATION",
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+ "47": "I-NONBIOLOGICAL_LOCATION",
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+ "48": "B-NONBIOLOGICAL_LOCATION",
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+ "49": "I-OCCUPATION",
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+ "50": "B-OCCUPATION",
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+ "51": "B-OTHER_ENTITY",
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+ "52": "I-OTHER_ENTITY",
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+ "53": "B-OTHER_EVENT",
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+ "54": "I-OTHER_EVENT",
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+ "55": "I-OUTCOME",
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+ "56": "B-OUTCOME",
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+ "57": "I-PERSONAL_BACKGROUND",
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+ "58": "B-PERSONAL_BACKGROUND",
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+ "59": "B-QUALITATIVE_CONCEPT",
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+ "60": "I-QUALITATIVE_CONCEPT",
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+ "61": "I-QUANTITATIVE_CONCEPT",
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+ "62": "B-QUANTITATIVE_CONCEPT",
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+ "63": "B-SEVERITY",
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+ "64": "I-SEVERITY",
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+ "65": "B-SEX",
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+ "66": "I-SEX",
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+ "67": "B-SHAPE",
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+ "68": "I-SHAPE",
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+ "70": "I-SIGN_SYMPTOM",
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+ "78": "B-TIME",
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+ "79": "B-VOLUME",
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+ "80": "I-VOLUME",
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+ "81": "I-WEIGHT",
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+ "O": 0
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+ },
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+ "layer_norm_eps": 1e-07,
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+ "max_position_embeddings": 512,
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+ "max_relative_positions": -1,
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+ "norm_rel_ebd": "layer_norm",
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