Package: comdynamite 0.5.0

comdynamite: Process-Based Metacommunity Simulations with Phylogenetic Structure

Simulates metacommunity dynamics with the process-based model of Thompson et al. (2020) <doi:10.1111/ele.13568>: density-independent growth that depends on the match between each species' environmental optimum and the local environment, Beverton-Holt competition, Poisson demographic stochasticity, and emigration and immigration among sites. Landscapes can be spatially implicit, with uniform dispersal, or explicit grids with an exponential dispersal kernel and a spatially autocorrelated environment, and the environment can change over time. Species traits (environmental optima, niche breadths and maximum growth rates) can carry phylogenetic signal or evolve under an Ornstein-Uhlenbeck process with one or several optima, and interspecific competition can be structured by relatedness. Rule-based assembly without population dynamics (limiting similarity, habitat filtering and neutral assembly) follows Kraft et al. (2007) <doi:10.1086/519400>, and static metacommunities with unimodal species responses follow Peres-Neto et al. (2012) <doi:10.1890/11-0494.1>. The model was implemented from the published equations.

Authors:Diogo B. Provete [aut, cre]