├── .flake8 ├── .github └── workflows │ ├── docs.yml │ └── python-ci.yml ├── .gitignore ├── .pydocstyle ├── LICENSE ├── README.rst ├── codecov.yml ├── docs ├── Makefile ├── make.bat └── source │ ├── _static │ ├── banner.png │ └── logo.png │ ├── api.rst │ ├── bibliography.rst │ ├── changelog.rst │ ├── conf.py │ ├── distributions_notebook.ipynb │ ├── durations_notebook.ipynb │ ├── gettingstarted.rst │ ├── icu_admissions_notebook.ipynb │ ├── icu_simulation_notebook.ipynb │ ├── index.rst │ ├── installation.rst │ ├── license.rst │ ├── mobility_facebook.ipynb │ ├── mobility_google.ipynb │ ├── prevalence_notebook.ipynb │ ├── refs.bib │ └── symptom_survey.ipynb ├── episuite ├── __init__.py ├── data.py ├── distributions.py ├── durations.py ├── icu.py ├── mobility │ ├── __init__.py │ ├── facebook.py │ └── google.py ├── prevalence.py └── sample_data │ └── admission_sample.csv ├── mypy.ini ├── pytest.ini ├── setup.py ├── tasks.py └── tests ├── __init__.py ├── test_data.py ├── test_distributions.py ├── test_durations.py ├── test_icu.py ├── test_main.py ├── test_mobility.py └── test_prevalence.py /.flake8: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/.flake8 -------------------------------------------------------------------------------- /.github/workflows/docs.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/.github/workflows/docs.yml -------------------------------------------------------------------------------- /.github/workflows/python-ci.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/.github/workflows/python-ci.yml -------------------------------------------------------------------------------- /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/.gitignore -------------------------------------------------------------------------------- /.pydocstyle: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/.pydocstyle -------------------------------------------------------------------------------- /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/LICENSE -------------------------------------------------------------------------------- /README.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/README.rst -------------------------------------------------------------------------------- /codecov.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/codecov.yml -------------------------------------------------------------------------------- /docs/Makefile: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/Makefile -------------------------------------------------------------------------------- /docs/make.bat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/make.bat -------------------------------------------------------------------------------- /docs/source/_static/banner.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/source/_static/banner.png -------------------------------------------------------------------------------- /docs/source/_static/logo.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/source/_static/logo.png -------------------------------------------------------------------------------- /docs/source/api.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/source/api.rst -------------------------------------------------------------------------------- /docs/source/bibliography.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/source/bibliography.rst -------------------------------------------------------------------------------- /docs/source/changelog.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/source/changelog.rst -------------------------------------------------------------------------------- /docs/source/conf.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/source/conf.py -------------------------------------------------------------------------------- /docs/source/distributions_notebook.ipynb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/source/distributions_notebook.ipynb -------------------------------------------------------------------------------- /docs/source/durations_notebook.ipynb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/source/durations_notebook.ipynb -------------------------------------------------------------------------------- /docs/source/gettingstarted.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/source/gettingstarted.rst -------------------------------------------------------------------------------- /docs/source/icu_admissions_notebook.ipynb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/source/icu_admissions_notebook.ipynb -------------------------------------------------------------------------------- /docs/source/icu_simulation_notebook.ipynb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/source/icu_simulation_notebook.ipynb -------------------------------------------------------------------------------- /docs/source/index.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/source/index.rst -------------------------------------------------------------------------------- /docs/source/installation.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/source/installation.rst -------------------------------------------------------------------------------- /docs/source/license.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/source/license.rst -------------------------------------------------------------------------------- /docs/source/mobility_facebook.ipynb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/source/mobility_facebook.ipynb -------------------------------------------------------------------------------- /docs/source/mobility_google.ipynb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/source/mobility_google.ipynb -------------------------------------------------------------------------------- /docs/source/prevalence_notebook.ipynb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/source/prevalence_notebook.ipynb -------------------------------------------------------------------------------- /docs/source/refs.bib: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/source/refs.bib -------------------------------------------------------------------------------- /docs/source/symptom_survey.ipynb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/docs/source/symptom_survey.ipynb -------------------------------------------------------------------------------- /episuite/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/episuite/__init__.py -------------------------------------------------------------------------------- /episuite/data.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/episuite/data.py -------------------------------------------------------------------------------- /episuite/distributions.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/episuite/distributions.py -------------------------------------------------------------------------------- /episuite/durations.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/episuite/durations.py -------------------------------------------------------------------------------- /episuite/icu.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/episuite/icu.py -------------------------------------------------------------------------------- /episuite/mobility/__init__.py: -------------------------------------------------------------------------------- 1 | from episuite.mobility import facebook # noqa(F401) 2 | -------------------------------------------------------------------------------- /episuite/mobility/facebook.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/episuite/mobility/facebook.py -------------------------------------------------------------------------------- /episuite/mobility/google.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/episuite/mobility/google.py -------------------------------------------------------------------------------- /episuite/prevalence.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/episuite/prevalence.py -------------------------------------------------------------------------------- /episuite/sample_data/admission_sample.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/episuite/sample_data/admission_sample.csv -------------------------------------------------------------------------------- /mypy.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/mypy.ini -------------------------------------------------------------------------------- /pytest.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/pytest.ini -------------------------------------------------------------------------------- /setup.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/setup.py -------------------------------------------------------------------------------- /tasks.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/tasks.py -------------------------------------------------------------------------------- /tests/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /tests/test_data.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/tests/test_data.py -------------------------------------------------------------------------------- /tests/test_distributions.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/tests/test_distributions.py -------------------------------------------------------------------------------- /tests/test_durations.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/tests/test_durations.py -------------------------------------------------------------------------------- /tests/test_icu.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/tests/test_icu.py -------------------------------------------------------------------------------- /tests/test_main.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/tests/test_main.py -------------------------------------------------------------------------------- /tests/test_mobility.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/tests/test_mobility.py -------------------------------------------------------------------------------- /tests/test_prevalence.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/perone/episuite/HEAD/tests/test_prevalence.py --------------------------------------------------------------------------------