├── .gitignore ├── README.MD ├── baseline ├── .ipynb_checkpoints │ └── mimic_icd9_baseline-checkpoint.ipynb ├── README.md ├── mimic_icd9_baseline.ipynb ├── nn_model.py └── paper_ranking_loss_scores.png ├── data └── readme.md ├── icd9_cnn ├── .ipynb_checkpoints │ ├── Untitled-checkpoint.ipynb │ ├── cnn_top20_leave-checkpoint.ipynb │ └── icd9_cnn_multilabel-checkpoint.ipynb ├── CNN_for_text2.png ├── cnn_model.py ├── cnn_model.pyc ├── cnn_top20_leave.ipynb ├── mimic_CNN_text_classification.png ├── tf_saved │ ├── cnn_trained.data-00000-of-00001 │ ├── cnn_trained.index │ └── cnn_trained.meta ├── utils.py ├── utils.pyc ├── vocabulary.py └── vocabulary.pyc ├── pipeline ├── .ipynb_checkpoints │ ├── Exploration-checkpoint.ipynb │ ├── Temp Guillaume-checkpoint.ipynb │ ├── Temp Guillaume2-checkpoint.ipynb │ ├── icd9_cnn_50K_run-checkpoint.ipynb │ ├── icd9_cnn_att_workbook-checkpoint.ipynb │ ├── icd9_hatt_workbook-checkpoint.ipynb │ └── icd9_lstm_cnn_workbook-checkpoint.ipynb ├── __pycache__ │ ├── database_selection.cpython-35.pyc │ ├── helpers.cpython-35.pyc │ └── vectorization.cpython-35.pyc ├── attention_util.py ├── database_selection.py ├── hatt_model.py ├── helpers.py ├── icd9_cnn_50K_run.ipynb ├── icd9_cnn_att.py ├── icd9_cnn_att_50K_records.ipynb ├── icd9_cnn_att_workbook.ipynb ├── icd9_cnn_model.py ├── icd9_hatt_workbook.ipynb ├── icd9_lstm_att_model.py ├── icd9_lstm_cnn.py ├── icd9_lstm_cnn_workbook.ipynb ├── lstm_model.py └── vectorization.py ├── pre_processing ├── MIMICERdiagram.png ├── README.md └── psql_files │ ├── create_discharge_notes_all_icd9 │ ├── query01_top_icd9_codes.sql │ ├── query02_filter_diagnoses_by_icd9_code.sql │ ├── query03C_icd9_codes_by_admission_create_table.sql │ ├── query03_icd9_codes_by_admission.sql │ ├── query04_filtering_discharge_summary_notes.sql │ ├── query05_discharge_notes_icd9_create_table.sql │ ├── query06_export_w266_table.sql │ ├── query_all_discharge_notes │ ├── query_icd9_codes │ └── top_icd9_codes.txt └── 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