SimCommunityAssembly: SimCommunityAssembly

In ruffleymr/CAMI: Identify models of community assembly using ABC and randomForest algorithms

Description

SimCommunityAssembly

Usage

SimCommunityAssembly(sims, N, local, traitsim, comsim, disable.bar = FALSE,
  output.sum.stats = TRUE, output.phydisp.stats = FALSE, lambda = c(0.05,
  2), eps = c(0.2, 0.8), sig2 = c(1, 10), alpha = c(0.01, 0.2),
  tau = c(5, 50))

Arguments

sims:	The number of simulations; sims
N:	The size of the regional communities, can be a single number or a prior range
local:	size of the local communities, can be a single number, a proportion of the regional pool (btw 0 and 1), or a prior range of proportions
traitsim:	either 'BM' or 'OU'
comsim:	either "netural", "filtering", "competition", "all"
lambda:	speciation rate, can be single number or prior range, default is a uniform prior between 0.5 and 2.0
eps:	the extinction fraction, extinction (mu) = lambda * eps, default is a uniform prior between 0.2 and 0.8
sig2:	rate of character change, can be single value or prior range, defualt is a unifom prior range between 1.0 and 10.0
alpha:	pull to trait optimum, defualt is a uniform prior range between 0.01 and 0.2
tau:	stregnth of the community assembly model, default is a uniform prior range between 1.0 and 5.0

Value

A list of two matrices, one containing all parameter values for each simulation, and the other containing all summary statistics. In both matrices, each row corresponds to one simulation

ruffleymr/CAMI documentation built on Aug. 21, 2019, 2:55 p.m.