Data and code used in Hennecke et al. "Host specialization governs the dilution of soil-borne pathogens by plant diversity"

R code and input data to reproduce the analyses of Hennecke et al. "Host specialization governs the dilution of soil-borne pathogens by plant diversity". The record contains: R Markdown scripts (00 to 04), a helper file and a script that runs them in order (run_all.R). Together they build the community datasets, compute host specialization metrics (host range N1, abundance-weighted phylogenetic distance of hosts, host association r.g) and fit Bayesian models with brms; input data: sample list, fungal OTU table and taxonomy, oomycete OTU table and taxonomy, and the DaPhnE plant phylogeny; intermediate data written by the scripts, including the specialization metrics, so that each script can be run on its own; fitted brms models, which can be loaded instead of refitted when the code is run; final figures and tables as reported in the manuscript; R and package versions used (session_info.txt). See README.md for the folder structure, run order and requirements, and Data/Raw/README_data.md for a description of all input files.