plot.pglm: Diagnostic plots for 'pgls' models.

In caper: Comparative Analyses of Phylogenetics and Evolution in R

Description

The function generates four diagnostics plots for 'pgls' models.

Usage

## S3 method for class 'pgls'
plot(x, ...)

Arguments

x	An object of class 'pgls'.
...	Additional arguments to plot functions.

Details

The first two plots show the fit of the phylogenetic residuals from the model to a normal distribution: a density plot of the residuals and a normal Q-Q plot. The second two plots scatterplots show pattern in the distribution of the fitted values against the observed and residual values.

Author(s)

Rob Freckleton, David Orme

See Also

pgls

Examples

data(shorebird)
shorebird <- comparative.data(shorebird.tree, shorebird.data, Species, vcv=TRUE, vcv.dim=3)
mod1 <- pgls(log(Egg.Mass) ~ log(M.Mass) * log(F.Mass), shorebird)
par(mfrow=c(2,2))
plot(mod1)

Example output

Loading required package: ape
Loading required package: MASS
Loading required package: mvtnorm

caper documentation built on May 2, 2019, 4:49 p.m.