├── .DS_Store ├── .gitattributes ├── .gitignore ├── Estimates-Database ├── README.md ├── database.csv ├── database_10.csv ├── database_5.csv ├── database_6.csv ├── database_7.csv ├── database_8.csv └── database_9.csv ├── LICENSE ├── README.md ├── Replication Codes ├── README.md ├── code │ └── python │ │ ├── construct_dataset │ │ ├── construct_dataset.py │ │ ├── input │ │ │ ├── time_series_covid19_confirmed_global.csv │ │ │ ├── time_series_covid19_deaths_global.csv │ │ │ └── time_series_covid19_recovered_global.csv │ │ └── output │ │ │ └── dataset.csv │ │ ├── download_data │ │ ├── download_data.py │ │ ├── input │ │ │ └── full-list-daily-covid-19-tests-per-thousand.csv │ │ └── output │ │ │ ├── Global_Mobility_Report.csv │ │ │ ├── R_EpiEstim.csv │ │ │ ├── data_notes.md │ │ │ ├── interventions.csv │ │ │ ├── time_series_covid19_confirmed_global.csv │ │ │ ├── time_series_covid19_deaths_global.csv │ │ │ └── time_series_covid19_recovered_global.csv │ │ ├── estimate_R │ │ ├── construct_STAN_models.py │ │ ├── estimate_R_KF.py │ │ ├── estimate_R_STAN.py │ │ ├── example_filter_smoother.py │ │ ├── input │ │ │ ├── construct_STAN_models │ │ │ │ └── optim_res.csv │ │ │ ├── estimate_R_KF │ │ │ │ └── dataset.csv │ │ │ ├── estimate_R_STAN │ │ │ │ ├── dataset.csv │ │ │ │ ├── model_missing.pkl │ │ │ │ └── model_no_missing.pkl │ │ │ └── example_filter_smoother │ │ │ │ ├── dataset.csv │ │ │ │ ├── model_missing.pkl │ │ │ │ └── model_no_missing.pkl │ │ └── output │ │ │ ├── construct_STAN_models │ │ │ ├── model_missing.pkl │ │ │ ├── model_no_missing.pkl │ │ │ ├── stan_code_missing.txt │ │ │ └── stan_code_no_missing.txt │ │ │ ├── estimate_R_KF │ │ │ ├── estimated_R.csv │ │ │ └── optim_res.csv │ │ │ ├── estimate_R_STAN │ │ │ ├── estimated_R.csv │ │ │ ├── estimated_R_10.csv │ │ │ ├── estimated_R_5.csv │ │ │ ├── estimated_R_6.csv │ │ │ ├── estimated_R_7.csv │ │ │ ├── estimated_R_8.csv │ │ │ └── estimated_R_9.csv │ │ │ └── example_filter_smoother │ │ │ ├── bayesian_filter.csv │ │ │ ├── bayesian_smoother.csv │ │ │ ├── filter_smoother.pgf │ │ │ ├── filter_smoother.png │ │ │ └── frequentist_estimates.csv │ │ ├── get_graphs │ │ ├── input │ │ │ ├── dataset.csv │ │ │ ├── estimated_R.csv │ │ │ └── interventions.csv │ │ ├── output │ │ │ └── table_R0 │ │ │ │ └── table_R0.rtf │ │ ├── plot_R.py │ │ ├── plot_raw_growth_rate.py │ │ └── table_R0.py │ │ ├── mismeasurement │ │ └── mismeasurement.py │ │ ├── regressions │ │ ├── correlate_epiestim.py │ │ ├── interventions.py │ │ ├── mobility_graphs.py │ │ ├── power_study.py │ │ └── predictive.py │ │ ├── simulation │ │ └── simulation.py │ │ ├── stargazer │ │ └── stargazer.py │ │ ├── tests │ │ ├── tests_dataset.py │ │ └── tests_estimates.py │ │ └── tools.py ├── fixed_revisions │ ├── derived_data │ │ ├── KF_results │ │ │ └── optim_res.csv │ │ ├── R_estimates │ │ │ └── estimated_R.csv │ │ ├── STAN_models │ │ │ ├── model_missing.pkl │ │ │ └── model_no_missing.pkl │ │ ├── dataset │ │ │ └── dataset.csv │ │ └── latex_input │ │ │ ├── MC_SEIR.pgf │ │ │ ├── MC_abs_error.pgf │ │ │ ├── MC_coverage_prob.pgf │ │ │ ├── MC_mean_estimates.pgf │ │ │ ├── R_World.pgf │ │ │ ├── R_countries.pgf │ │ │ ├── R_countries_2.pgf │ │ │ ├── correlate_epiestim.txt │ │ │ ├── event_study_case_based.pgf │ │ │ ├── event_study_lockdown.pgf │ │ │ ├── event_study_mobility.pgf │ │ │ ├── event_study_public.pgf │ │ │ ├── event_study_school_closure.pgf │ │ │ ├── event_study_social_distancing.pgf │ │ │ ├── filter_smoother.pgf │ │ │ ├── interventions.txt │ │ │ ├── interventions_one_at_a_time.txt │ │ │ ├── mobility_scatter.pgf │ │ │ ├── parameters_power_study.txt │ │ │ ├── power_study.pgf │ │ │ ├── predictive_1.pgf │ │ │ ├── predictive_2.pgf │ │ │ ├── raw_data_infected.pgf │ │ │ └── table_R0.txt │ └── original_data │ │ ├── Global_Mobility_Report.csv │ │ ├── R_EpiEstim.csv │ │ ├── data_notes.md │ │ ├── full-list-daily-covid-19-tests-per-thousand.csv │ │ ├── interventions.csv │ │ ├── time_series_covid19_confirmed_global.csv │ │ ├── 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