Data for `Theory of Infectious Diseases with Testing and Testing-less Covid-19 Endemic' by B.Deng and C.Y. Yang

All mfiles starting with 'Run_*' can be run on Matlab without any pre-loaded variables or data. <br> The three files in the root directory consist of the only input data to all program mfiles for three of the four folders: Build_Real_Data, Build_Solution_Book, Plot_Output. Of which, SICM.m is the mathematical model, Input_Matched_InitialsAndParameters.mat contains initial conditions and parameter values for each day from day 50 to day 590, 30 best-fitted values for each day, ranking from the best to worst fit. The third csv file is the US cases and deaths data from CDC. <br> The order in which to generate the output data files is to run all Run_* mfiles in folders (1) Build_Real_Data (2) Build_Solution_Book (3) Plot_Output <br> To save memory space, Solution_Sheet.mat is not included in the shared data. It needs to be generated in Build_Solution_Book before plots in Plot_Output can be done. <br> When you reach the Plot_Output folder, you have build all data files to generate the fig_best_match, and the testing-free equilibrium E_1 and the interior endemic equilibrium E_* for the best-fitted model. <br> Files in folder 'Variant Typing' is independent and is for varients of Covid-19. Data file 'Publication_Data' contains parameters and ininitials for 5 variants from day 50 to day 590. 'Publication_Data_Classification' contains classification of the variants parameters into types according to Theorem 1.1 and Theorem 1.2 of the manuscript. For example, T113 is for the type defined by parameter condition 3 of Theorem 1.1, and T123 is for Theorem 1.2's parameter type 3. <br> All figures for the manuscript, 'Theory of Infectious Diseases with Testing and Testing-less Covid-19 Endemic' by B.Deng and CY. Yang are located in the root directory. <br> Note: It requires zero knowledge to verify the result. All one needs is the model SICM.m (or SICMRD.m) and the initial values and parameters provided in the root folder and in the `Variant Typing' folder. <br> Dr. B. Deng Univ. of Nebraska-Lincoln USA <br> All rights preserved. June 2023. <br>

所有以"Run_*"开头的Matlab脚本文件（mfile）均可直接在Matlab环境中运行，无需预先加载任何变量或数据。
根目录下的三个文件，是其余三个文件夹（Build_Real_Data、Build_Solution_Book、Plot_Output）中所有程序mfile的唯一输入数据源。其中，SICM.m为该研究的核心数学模型；Input_Matched_InitialsAndParameters.mat包含了第50天至第590天每日的初始条件与参数值，且每日对应30组最优拟合结果，按拟合优度从高到低排序；第三个CSV文件为美国疾病控制与预防中心（Centers for Disease Control and Prevention, CDC）提供的美国新冠确诊与死亡数据。
生成输出数据文件的正确运行顺序为：依次运行三个文件夹内的所有"Run_*"mfile，顺序为(1) Build_Real_Data (2) Build_Solution_Book (3) Plot_Output。
为节省存储空间，共享数据中未包含Solution_Sheet.mat文件；该文件需在Build_Solution_Book文件夹中生成后，方可在Plot_Output文件夹中进行绘图操作。
当进入Plot_Output文件夹时，已完成所有数据文件的构建，可生成最优拟合模型对应的最佳匹配图（fig_best_match）、无检测均衡点（testing-free equilibrium）E₁以及内部地方病均衡点（interior endemic equilibrium）E_*。
"Variant Typing"（变异株分型）文件夹内的文件为独立模块，用于新冠病毒（COVID-19）的变异株研究。其中数据文件Publication_Data包含了第50天至第590天内5种新冠变异株的参数与初始条件；Publication_Data_Classification则依据研究手稿中的定理1.1与定理1.2，将变异株参数划分为不同类型。例如，T113对应定理1.1中由参数条件3所定义的类型，T123则对应定理1.2中的参数类型3。
本研究手稿《Theory of Infectious Diseases with Testing and Testing-less Covid-19 Endemic》（《带检测与无检测的传染病理论及新冠地方流行病》）由B. Deng与CY. Yang合著，其所有配图均存放于根目录下。
备注：验证该研究结果无需额外专业知识，仅需使用根目录及"Variant Typing"文件夹中提供的SICM.m（或SICMRD.m）模型，以及对应的初始值与参数即可。
美国内布拉斯加大学林肯分校 B. Deng 博士
保留所有权利。2023年6月。