This folder includes all the ODE code, simulated data, empirical data, and analyzing scripts.
- full Model
ODE: ODESImmunity_v14_new.R
Parameter file: v13_param.csv，v14_param.csv，v15_param.csv
Results: v628_results_all.csv
- GI only model
ODE: ODESGIMean_v13.R
Parameter file: v13_GIMean_param.csv
Results: v13_GIMean_results.csv
- Policy change
ODE: policy_change.R
Input: output of the full model，v628_results_all.csv
- Empirical
Resistance Frequency data: WWARN_ACT_Partner_Drug_Mol_Surveyor_Data_2022.xls
Prevalence: analysis_uniqueGeo.csv
Continents: continents.csv
Drug Usage: DrugUsage.xlsx