Anthony Zhenhuan Zhang (zhan4490@umn.edu) Eva A. Enns (eenns@umn.edu)
University of Minnesota
This Github repository contains Rscripts to simulation COVID-19 outbreak in major Chinese cities: Wuhan, Chongqing, Beijing, and Shanghai. Below, we first introduce the functionality of each script, and present the model calibration. Lastly, we demonstrate how to run simulation to generate results.
- functional scripts which simulates SARS-CoV-2 dynamics in Wuhan and other Chinese cities: wuhan_simulation_policy_by_age.R and other_city_simulaiton_policy_by_age.R
- model inputs generation: model_inputs.R
- Incremental Mixture Importance Sampling model calibration: model_calibration_ver_3.R
- Generate status quo: decompose_economy_loss_probablistic.R
- Generate model outcomes under different timing and duration of control policies: all scripts under "simulation_by_policy" folder.
We calibrated our model using Incremental Mixture Importance Sampling methods, see model_calibration_ver_3.R
Run decompose_economy_loss_probablistic.R twice. In the first round, we estimate the mean disease burden, in the second round, we generate both the epidemiological and economic outcome
To generate model results, run scripts under "simulation_by_policy" folder.