├── .gitignore ├── LICENSE ├── Makefile ├── README.md ├── Track2-evaluate-ver4.py ├── annotations.py ├── app.yaml ├── bilstm_crf_ner ├── README.md ├── __init__.py ├── build_data.py ├── model │ ├── config.py │ ├── core.py │ ├── crf.py │ ├── data_utils.py │ ├── general_utils.py │ ├── ner_learner.py │ └── ner_model.py ├── test.py └── train.py ├── biobert_ner ├── README.md ├── run_ner.py └── utils_ner.py ├── biobert_re ├── README.md ├── data_processor.py ├── metrics.py ├── run_re.py └── utils_re.py ├── ehr.py ├── fast_api.py ├── front-end ├── ehr.html ├── ladda-themeless.min.css ├── ladda.js └── spin.js ├── generate_data.py ├── plots ├── BioBERT.jpg ├── end_to_end_micro_f1_challenge.jpg ├── entity_counts.jpg ├── ner_ade_f1.jpg ├── ner_entity_scores.jpg ├── ner_micro_f1.jpg ├── ner_micro_f1_challenge.jpg ├── re_entity_scores.jpg ├── re_micro_f1_challenge.jpg └── relation_counts.jpg ├── predict.py ├── requirements.txt ├── rule_based_ner └── dict_ner.py └── utils.py /.gitignore: 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