.flake8
.gitattributes
.gitignore
.mypy.ini
.pre-commit-config.yaml
LICENSE
README.md
_config.yml
pyproject.toml
.github/ISSUE_TEMPLATE/bug_report.md
.github/ISSUE_TEMPLATE/feature_request.md
.github/workflows/build.yaml
.github/workflows/tests.yaml
src/femr/__init__.py
src/femr/_version.py
src/femr/hf_utils.py
src/femr/index.py
src/femr/ontology.py
src/femr/pat_utils.py
src/femr/splits.py
src/femr/stat_utils.py
src/femr.egg-info/PKG-INFO
src/femr.egg-info/SOURCES.txt
src/femr.egg-info/dependency_links.txt
src/femr.egg-info/entry_points.txt
src/femr.egg-info/requires.txt
src/femr.egg-info/top_level.txt
src/femr/featurizers/__init__.py
src/femr/featurizers/core.py
src/femr/featurizers/featurizers.py
src/femr/featurizers/utils.py
src/femr/labelers/__init__.py
src/femr/labelers/core.py
src/femr/labelers/omop.py
src/femr/models/config.py
src/femr/models/processor.py
src/femr/models/rmsnorm.py
src/femr/models/tasks.py
src/femr/models/tokenizer.py
src/femr/models/transformer.py
src/femr/models/xformers.py
src/femr/post_etl_pipelines/__init__.py
src/femr/post_etl_pipelines/stanford.py
src/femr/transforms/__init__.py
src/femr/transforms/stanford.py
tests/__init__.py
tests/femr_test_tools.py
tests/test_ontology.py
tests/test_transforms.py
tests/featurizers/test_OnlineStatistics.py
tests/featurizers/test_featurizers.py
tests/labelers/test_CodeLabelers.py
tests/labelers/test_TimeHorizonEventLabeler.py
tests/models/test_batch_creator.py
tests/models/test_survival_calculator.py
tools/stanford/download_bigquery.py
tutorials/1_Ontology.ipynb
tutorials/2_Labeling.ipynb
tutorials/3_Count Featurization And Modeling.ipynb
tutorials/4_Train CLMBR.ipynb
tutorials/5_CLMBR Featurization And Modeling.ipynb
tutorials/6_Train MOTOR.ipynb
tutorials/7_MOTOR Featurization And Modeling.ipynb
tutorials/input/labels.csv
tutorials/input/clmbr_model/config.json
tutorials/input/clmbr_model/dictionary.msgpack
tutorials/input/clmbr_model/main_split.csv
tutorials/input/clmbr_model/model.safetensors
tutorials/input/meds/metadata.json
tutorials/input/meds/ontology.pkl
tutorials/input/meds/data/patients.parquet
tutorials/input/motor_model/config.json
tutorials/input/motor_model/dictionary.msgpack
tutorials/input/motor_model/main_split.csv
tutorials/input/motor_model/model.safetensors
tutorials/synthetic_data_generation/generate_patients.py
tutorials/trash/.gitkeep