plot.count

From untb v1.7-2 by Robin K S Hankin

Abundance curves

Plot the ranked abundance curve

Keywords: math

Usage

"plot"(x, uncertainty = FALSE, expectation = FALSE, theta = NULL, n = 10, ...)
"plot"(x, uncertainty = FALSE, expectation = FALSE, theta = NULL, n = 10, ...)

Arguments

x: Ecosystem object, coerced to class count
uncertainty: Boolean, with TRUE meaning to show bootstrapped estimates for the species diversity curve, and default FALSE meaning to omit this
expectation: Boolean, with TRUE meaning to plot expected abundances, and default FALSE meaning not to plot them. Warning this option takes a loooong time to run, even for moderate values of $J$
theta: Fundamenal biodiversity number used if argument uncertainty or expectation are TRUE. Default value of NULL means to use the maximum likelihood estimate returned by function optimal.theta()
n: Number of bootstrapped estimates to plot
...: Extra parameters passed to untb()

Details

Plots a ranked abundance curve, optionally with parametrically resampled datasets showing the uncertainties

Note

If using expectation, it's usually necessary to set ylim and possibly xlim manually.

Examples

data(copepod)
plot(copepod)

data(butterflies)
plot(butterflies,uncertainty=TRUE)

x <- count(c(pigs=1, dogs=1, cats=2, frogs=3, bats=5, slugs=8))
plot(x,expectation=TRUE,ylim=c(0.5,10))

Documentation reproduced from package untb, version 1.7-2, License: GPL

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