generate.initial.values: Generate initial values for plateau envelopes

In MarkJBrewer/plateau: Fit plateau climate envelopes in species distribution models for presence/absence data

Description

generate.initial.values generates initial values for the plateau envelopes. It is called by fit.glm.env and fit.bugs.env, and is not intended for use interactively.

Usage

generate.initial.values(y, x.clim, x.nonclim = NULL, x.factor = NULL,
  constrain.beta = FALSE, random = FALSE, pars, silent = TRUE)

Arguments

y	The binary response variable (taking values 0 or 1 for absence and presence respectively).
x.clim	The n by p matrix of climate covariates.
x.nonclim	The n by p2 matrix of non-climate covariates.
x.factor	The n by p3 matrix of non-climate factors.
constrain.beta	Should ridge penalty be imposed on the betas (slopes)?
random	Logical flag on whether or not to generate random starting values
pars	The vector of envelope parameters, length 2p+p+2+p(p-1)/2
silent	Logical flag denoting whether the function runs silently or not. Default is TRUE.

Value

If random==TRUE, the output will be a single vector of parameter values in the order required for glm.env.fn; if random==FALSE, the output will be a list with two elements: initial.pars, a single vector of parameter values in the order required for glm.env.fn, and constrain.beta, also as for glm.env.fn.

MarkJBrewer/plateau documentation built on May 7, 2019, 3:35 p.m.