.gitignore
.pre-commit-config.yaml
LICENSE
README.md
pyproject.toml
.github/ISSUE_TEMPLATE/add-a-dataset.md
.github/ISSUE_TEMPLATE/add-a-model.md
.github/ISSUE_TEMPLATE/add-a-task.md
.github/ISSUE_TEMPLATE/benchmark-result.yml
.github/workflows/code-quality-main.yaml
.github/workflows/code-quality-pr.yaml
.github/workflows/python-build.yaml
.github/workflows/tests.yaml
.github/workflows/upload_benchmark_result.yaml
src/MEDS_DEV/__init__.py
src/MEDS_DEV/utils.py
src/MEDS_DEV.egg-info/PKG-INFO
src/MEDS_DEV.egg-info/SOURCES.txt
src/MEDS_DEV.egg-info/dependency_links.txt
src/MEDS_DEV.egg-info/entry_points.txt
src/MEDS_DEV.egg-info/requires.txt
src/MEDS_DEV.egg-info/top_level.txt
src/MEDS_DEV/configs/__init__.py
src/MEDS_DEV/configs/_build_dataset.yaml
src/MEDS_DEV/configs/_evaluate_predictions.yaml
src/MEDS_DEV/configs/_extract_task.yaml
src/MEDS_DEV/configs/_package_result.yaml
src/MEDS_DEV/configs/_run_model.yaml
src/MEDS_DEV/configs/_validate_result.yaml
src/MEDS_DEV/datasets/README.md
src/MEDS_DEV/datasets/__init__.py
src/MEDS_DEV/datasets/__main__.py
src/MEDS_DEV/datasets/AUMCdb/README.md
src/MEDS_DEV/datasets/AUMCdb/predicates.yaml
src/MEDS_DEV/datasets/MIMIC-IV/README.md
src/MEDS_DEV/datasets/MIMIC-IV/__init__.py
src/MEDS_DEV/datasets/MIMIC-IV/dataset.yaml
src/MEDS_DEV/datasets/MIMIC-IV/predicates.yaml
src/MEDS_DEV/datasets/MIMIC-IV/refs.bib
src/MEDS_DEV/datasets/MIMIC-IV/requirements.txt
src/MEDS_DEV/evaluation/README.md
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src/MEDS_DEV/evaluation/__main__.py
src/MEDS_DEV/models/__init__.py
src/MEDS_DEV/models/__main__.py
src/MEDS_DEV/models/cehrbert/README.md
src/MEDS_DEV/models/cehrbert/__init__.py
src/MEDS_DEV/models/cehrbert/_config.yaml
src/MEDS_DEV/models/cehrbert/cehrbert_finetune_template.yaml
src/MEDS_DEV/models/cehrbert/cehrbert_pretrain_template.yaml
src/MEDS_DEV/models/cehrbert/finetune_cehrbert.py
src/MEDS_DEV/models/cehrbert/generate_cehrbert_predictions.py
src/MEDS_DEV/models/cehrbert/model.yaml
src/MEDS_DEV/models/cehrbert/pretrain_cehrbert.py
src/MEDS_DEV/models/cehrbert/refs.bib
src/MEDS_DEV/models/cehrbert/requirements.txt
src/MEDS_DEV/models/genhpf/README.md
src/MEDS_DEV/models/genhpf/__init__.py
src/MEDS_DEV/models/genhpf/genhpf_predict.yaml
src/MEDS_DEV/models/genhpf/genhpf_train.yaml
src/MEDS_DEV/models/genhpf/model.yaml
src/MEDS_DEV/models/genhpf/refs.bib
src/MEDS_DEV/models/genhpf/requirements.txt
src/MEDS_DEV/models/meds_tab/README.md
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src/MEDS_DEV/models/meds_tab/tiny/README.md
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src/MEDS_DEV/models/meds_tab/tiny/model.yaml
src/MEDS_DEV/models/meds_tab/tiny/requirements.txt
src/MEDS_DEV/models/random_predictor/README.md
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src/MEDS_DEV/models/random_predictor/_config.yaml
src/MEDS_DEV/models/random_predictor/generate_random_predictions.py
src/MEDS_DEV/models/random_predictor/model.yaml
src/MEDS_DEV/results/README.md
src/MEDS_DEV/results/__init__.py
src/MEDS_DEV/results/__main__.py
src/MEDS_DEV/tasks/README.md
src/MEDS_DEV/tasks/__init__.py
src/MEDS_DEV/tasks/__main__.py
src/MEDS_DEV/tasks/abnormal_lab/README.md
src/MEDS_DEV/tasks/abnormal_lab/blood_chemistry/elevated_creatinine/first_24h.yaml
src/MEDS_DEV/tasks/abnormal_lab/blood_chemistry/hyponatremia/first_24h.yaml
src/MEDS_DEV/tasks/abnormal_lab/blood_chemistry/metabolic_acidosis/first_24h.yaml
src/MEDS_DEV/tasks/abnormal_lab/cbc/anemia/first_24h.yaml
src/MEDS_DEV/tasks/abnormal_lab/cbc/leukocytosis/first_24h.yaml
src/MEDS_DEV/tasks/abnormal_lab/cbc/thrombocytopenia/first_24h.yaml
src/MEDS_DEV/tasks/abnormal_lab/vital/hypotension/first_24h.yaml
src/MEDS_DEV/tasks/mortality/README.md
src/MEDS_DEV/tasks/mortality/in_icu/README.md
src/MEDS_DEV/tasks/mortality/in_icu/first_24h.yaml
src/MEDS_DEV/tasks/readmission/README.md
src/MEDS_DEV/tasks/readmission/general_hospital/30d.yaml
src/MEDS_DEV/tasks/readmission/general_hospital/README.md
templates/README.md
templates/dataset.md
templates/model.md
templates/results.md
templates/task.md
tests/__init__.py
tests/conftest.py
tests/test_0_datasets.py
tests/test_1_tasks.py
tests/test_1_unsupervised_models.py
tests/test_2_supervised_models.py
tests/test_3_evaluation.py
tests/test_4_result_packaging.py
tests/utils.py