Adaptation of pathogens to their local plant host, Silphium integrifolium, along a precipitation gradient

All figures and code were generated in RStudio 2022.02.3+492 "Prairie Trillium" Release. All packages needed to run the R code are shown in the RMD’s. Code to generate figures and statistical analysis: DVTindex_help.Rmd Code to generate figure 3 Figure5_PrairieVSCommonGarden Code to generate figure 5 PATHOFigs_for_Manu_FEB22.Rmd Code to generate figures 1, 2, 4 SUPP_Figure3_DimPathoEDIT.Rmd Code to generate supplementary figure 3 (fig S3) STATSAnalysis_PathoDim2B.Rmd Code to generate all tables and statistical analysis in the manuscript Description of data files: 2019and2020Prairie_data.txt This file contains data collected from the prairie sites in 2019 and 2020 Dim2b_latlon.csv The latitudinal and longitudinal coordinates for the common garden sites and prairie sites as well as precipitation data DVTINDEX_from_DVT.csv A separate file that contains the data that produced fig 3. This data file is sourced from SEPT2019_2020_COMPILED_2b_DATACOLL.txt SEPT2019_2020_COMPILED_2b_DATACOLL.txt SEPT2019_2020_COMPILED_2b_DATACOLL_plots.txt SEPT2019_2020_COMPILED_2b_DATACOLL_plots_longversion.txt These 3 data files are different versions of the same raw data that was collected from the common garden sites in 2019 and 2020. The code calls for all 3 at different points to generate plots and run statistical analyses Summary [ insert unique name here] Various data frames generated from r mark downs that contain summary statistics of the data. These are used to produce the figures in PATHOFigs_for_Manu_FEB22.Rmd graphs.本研究所有图表与代码均生成于RStudio 2022.02.3+492「草原延龄草（Prairie Trillium）」版本。运行R代码所需的全部依赖包均在R Markdown文档（RMD）中列明。 用于生成图表与统计分析的代码为DVTindex_help.Rmd；用于生成图3的代码为Figure5_PrairieVSCommonGarden；用于生成图5的代码为PATHOFigs_for_Manu_FEB22.Rmd；用于生成图1、2、4的代码为SUPP_Figure3_DimPathoEDIT.Rmd；用于生成补充图3（图S3）以及论文中全部表格与统计分析的代码为STATSAnalysis_PathoDim2B.Rmd。 数据文件说明如下： 1. 2019and2020Prairie_data.txt：收录了2019年与2020年草原样地的采集数据； 2. Dim2b_latlon.csv：包含共同花园样地与草原样地的经纬度坐标，以及降水数据； 3. DVTINDEX_from_DVT.csv：单独的数据文件，存储了用于生成图3的原始数据，该数据集源自SEPT2019_2020_COMPILED_2b_DATACOLL.txt； 4. SEPT2019_2020_COMPILED_2b_DATACOLL.txt、SEPT2019_2020_COMPILED_2b_DATACOLL_plots.txt、SEPT2019_2020_COMPILED_2b_DATACOLL_plots_longversion.txt：这3个文件为2019年与2020年共同花园样地采集的同一份原始数据的不同版本，代码会在不同环节调用这3个文件以生成图表并开展统计分析； 5. Summary [ insert unique name here]：由R Markdown生成的各类数据框，存储了数据集的汇总统计量，用于PATHOFigs_for_Manu_FEB22.Rmd的图表绘制。