├── .Rprofile ├── .flake8 ├── .gitignore ├── .python-version ├── .vscode └── settings.json ├── LICENSE ├── Makefile ├── README.md ├── analysis ├── R │ ├── figure_phase_reason.R │ ├── figures.R │ ├── report.rmd │ └── sections │ │ ├── efficacy.rmd │ │ ├── predictions.rmd │ │ ├── safety.rmd │ │ └── sentenceSimilarities.rmd ├── README.md └── python │ ├── enrichments.py │ ├── enrichments_permuted.py │ ├── enrichments_stop_phase.py │ └── multiple_testing_correction.py ├── classifier ├── .python-version ├── README.md ├── stop_reasons │ ├── evaluate_model.py │ ├── inference_local.py │ ├── inference_spark.py │ ├── pt_trainer.py │ ├── push_to_hub.py │ ├── tf_trainer.py │ └── utils.py └── utils │ └── initialise_cluster.sh ├── config.yml ├── data ├── classes.csv ├── frequencies.csv ├── predictions_stop.tsv ├── proteinatlas.json.gz ├── reason_vs_phase_predictions.csv ├── stopped_predictions_formatted_30_09_22.csv └── wvectors.csv ├── poetry.lock ├── pyproject.toml ├── renv.lock ├── renv ├── 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