Grafting Scenarios

Non-monophyletic genera

Simple example

Benchmark for PSV family functions | psv | pse | pcd | Benchmark for community PGLMM (pglmm) | Benchmark for cor_phylo()

Fit a binomial model with success and failures | Prepare random terms for complex models that cannot be set up with formula | Other functions to work with models fitted with pglmm()

Main function | Simulate data | Var-cov matrices of random terms | Plot var-cov matrices of all random terms in one figure | Individual plots for var-cov matrices | Simulated site by species matrix for random terms | Plot simulated matrices of all random terms in one figure | Individual plots for simulated site by species matrix | Fitted model as input