sads (version 0.2.2)

fitrad-class: Class "fitrad" for maximum likelihood fitting of species rank-abundance distributions

Description

This class extends mle2-class to encapsulate models of species rank-abundance distributions (RADs) fitted by maximum likelihood.

Objects from the Class

Objects created by a call to function fitrad, which fits a probability distribution to an abundance vector.

Extends

Class "mle2", directly.

source

this class builds on mle2-class of bbmle package (Bolker 2012), which in turn builds on mle-class.

References

Bolker, B. and R Development Core Team 2012. bbmle: Tools for general maximum likelihood estimation. R package version 1.0.5.2. http://CRAN.R-project.org/package=bbmle

See Also

mle2-class for all methods available from which fitrad-class inherits; fitrad for details on fitting RADs models; octavpred and radpred to get rank-abundance and frequencies of species in octaves predicted from fitted models.

Examples

ok.gser <- fitrad(okland, "gs")
## The class has a plot method to show diagnostic plots
par(mfrow=c(2,2))
plot(ok.gser)
par(mfrow=c(1,1))
## Some useful methods inherited from mle2-class
coef(ok.gser)
confint(ok.gser)
logLik(ok.gser)
## Model selection
ok.zipf <- fitrad(okland, "zipf")
AICctab(ok.gser, ok.zipf, nobs=length(moths), base=TRUE)