Raw data and code for epidemiological model

Files in this folder contain data collected from parasite adaptation assays.1. Dispersal_data: number of infected individuals observed in dispersal patch (n_I_DISPERSERS) and number of infected in resident tube (n_I_RESIDENT) for each unique combination of Host genotype, selection line and experimental block.2. Infectivity_data: number of infected and uninfected individuals on day 4 post inoculation for each culture; unique combinations of host genotype and selection line.3. Infectiousness_data: number of host with infectious stages of infection over time (days post infection, DPI). Unique host genotype and selection line combinations are measured over a sliding-window as explained in the text.4. Virulence data: data collected from the virulence assay. The maximum number of paramecia observed in each culture (n_paramecium_max) and the number of paramecium at day 20 (n_paramecium_dat20), for each combination of infected and uninfected host genotype and selection lines. Column survive_day (and column censor) refer to the day that each culture goes extinct, or are alive at experimental termination on day 20.5. Movement_data: swimming speed (net_speed_mean) and turning angle (sd_turning_mean) for each culture; unique combinations of infected and uninfected host genotype and selection line.And, a compressed file contains the code and data used to fit the epidemiological model. Specified details and readme is provided within the folder.

本文件夹所包含的文件，收录了寄生虫适应性实验所收集的数据。1. 传播数据：记录了散布区域中观察到的感染个体数量（n_I_DISPERSERS）以及居住管中感染个体数量（n_I_RESIDENT），针对宿主基因型、选择系和实验区块的每一种独特组合。2. 传染性数据：记录了每个培养皿在接种后第4天的感染个体数量和未感染个体数量；针对宿主基因型和选择系的独特组合。3. 传染力数据：测量宿主在感染后不同时间点（感染后天数，DPI）的感染阶段传染力。针对独特的主基因型和选择系组合，在滑动窗口内进行测量，具体方法见文本说明。4. 致病性数据：从致病性实验中收集的数据。记录每个培养皿中观察到的最大草履虫数量（n_paramecium_max）和第20天的草履虫数量（n_paramecium_dat20），针对感染宿主和未感染宿主的基因型和选择线的每一种独特组合。'survive_day'（及'censor'列）指代每个培养皿灭绝或至实验结束时存活至第20天的日期。5. 迁移数据：记录每个培养皿的游泳速度（net_speed_mean）和转向角度（sd_turning_mean）；针对感染宿主和未感染宿主的基因型和选择线的每一种独特组合。此外，一个压缩文件包含了拟合流行病学模型的代码和数据。文件夹内提供了详细说明和readme文件。