Data and code from: Effects of phylogeny on coexistence in model communities

This repository contains code and data needed for the analyses presented
in the paper 'Effects of phylogeny on coexistence in model
communities'. In that contribution, by coupling a simple model of
trait evolution on a phylogenetic tree with Lotka-Volterra community
dynamics, allows us to derive properties of a community of coexisting
species as a function of the number of traits, tree topology and the size
of the species pool. Our analysis highlights how phylogenies, through
traits, affect the coexistence of a set of species. Together,
these results provide much-needed baseline expectations for the ways in
which evolutionary history, summarized by phylogeny, is reflected in the
size and structure of ecological communities. Here we provide de code
needed to compute analytic expectations, to simulate community dynamics,
as well as the dataset (Biodiversity II experiments, Tilman et al.,
Science 2001) used to test model predictions.

本仓库包含论文《系统发育（phylogeny）对模型群落共存的影响》中所呈现分析所需的代码与数据。在该研究中，通过将系统发育树（phylogenetic tree）上的简单性状演化（trait evolution）模型与洛特卡-沃尔泰拉群落动态（Lotka-Volterra community dynamics）耦合，我们得以推导共存物种群落的特性——这些特性是性状数量、树拓扑结构（tree topology）及物种库（species pool）大小的函数。我们的分析强调了系统发育如何通过性状影响一组物种的共存。这些结果共同为演化历史（evolutionary history）（由系统发育概括）在生态群落大小与结构中的反映方式提供了亟需的基准预期。在此，我们提供计算解析预期、模拟群落动态所需的代码，以及用于检验模型预测的数据集（《Biodiversity II》实验，Tilman等，《Science》2001）。