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.