├── README.md ├── black-box-vi-prs ├── CONTRIBUTING ├── LICENSE ├── README.md └── bbviPRS_Implementation_Example.ipynb ├── ml-based-copd ├── CONTRIBUTING.md ├── LICENSE ├── README.md ├── analysis │ ├── GREAT_analysis.ipynb │ ├── analysis_replication.md │ ├── figure_2.ipynb │ ├── figure_3.ipynb │ ├── figure_4.ipynb │ └── survival_analysis.R └── learning │ ├── .gitignore │ ├── callbacks.py │ ├── configs │ ├── config_utils.py │ └── resnet18_fv_copd.py │ ├── dataset_util.py │ ├── head_utils.py │ ├── input_pipeline.py │ ├── losses.py │ ├── metrics.py │ ├── model_utils.py │ ├── models.py │ ├── notebooks │ └── run_inference_demo.ipynb │ ├── optimizers.py │ ├── predict_utils.py │ ├── requirements.txt │ ├── run_ensemble.py │ ├── run_predict.py │ ├── run_train.py │ ├── train.py │ └── ukb_3066_demo_preprocessing.py ├── ml-based-vcdr ├── LICENSE ├── README.md ├── analysis │ ├── learning_prs.ipynb │ ├── perf_metrics.py │ ├── pheno_utils.py │ ├── phenotype_calling.ipynb │ └── plotting_results.ipynb ├── docs │ ├── code-of-conduct.md │ └── contributing.md └── learning │ ├── configs │ └── base.py │ ├── ensemble_utils.py │ ├── evaluate.py │ ├── evaluate_ensemble.py │ ├── input_pipeline.py │ ├── metrics.py │ ├── model_utils.py │ ├── predict.py │ ├── predict_ensemble.py │ ├── predict_utils.py │ ├── requirements.txt │ ├── train.py │ └── train_ensemble.py ├── mregle ├── CONTRIBUTING.md ├── LICENSE ├── README.md ├── data │ ├── ukb_ecg_demo_20205_2_0.xml │ └── ukb_ppg_demo_4205.dat ├── generate_dataset_from_ukb_demo.py ├── generate_mregle_embeddings.py ├── lib │ ├── __init__.py │ └── models.py ├── model_ckpts │ ├── ecg12 │ │ └── multimodal │ │ │ ├── fingerprint.pb │ │ │ ├── keras_metadata.pb │ │ │ ├── saved_model.pb │ │ │ └── variables │ │ │ ├── variables.data-00000-of-00001 │ │ │ └── variables.index │ └── ecg_leadI_ppg │ │ └── multimodal │ │ ├── fingerprint.pb │ │ ├── keras_metadata.pb │ │ ├── saved_model.pb │ │ └── variables │ │ ├── variables.data-00000-of-00001 │ │ └── variables.index ├── requirements.txt └── train.py ├── nonlinear-covariate-gwas ├── DeepNull_e2e.ipynb ├── LICENSE ├── README.md ├── __init__.py ├── config.py ├── config_test.py ├── data.py ├── data_test.py ├── main.py ├── main_test.py ├── metrics.py ├── metrics_test.py ├── model.py ├── model_test.py ├── requirements.txt ├── setup.py ├── train_eval.py └── train_eval_test.py ├── regle ├── CONTRIBUTING.md ├── LICENSE ├── README.md ├── analysis │ ├── analysis_replication.md │ ├── embedding_interpretability.ipynb │ ├── pca_and_spline_fitting.ipynb │ └── prs_analysis.ipynb ├── generate_spincs.py ├── generate_ukb_3066_demo_dataset.py ├── lib │ ├── __init__.py │ └── models.py ├── requirements.txt ├── saved_models │ ├── plencs │ │ ├── keras_metadata.pb │ │ ├── saved_model.pb │ │ └── variables │ │ │ ├── variables.data-00000-of-00001 │ │ │ └── variables.index │ ├── rplencs │ │ ├── keras_metadata.pb │ │ ├── saved_model.pb │ │ └── variables │ │ │ ├── variables.data-00000-of-00001 │ │ │ └── variables.index │ ├── 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