# optimal.prob

0th

Percentile

##### Returns an estimate of the fundamental biodiversity number

Returns a maximum likelihood estimate for the fundamental biodiversity number $\theta$ (function optimal.theta()) or the probability of mutation (function optimal.prob()) and optionally return information about the likely error

Keywords
math
##### Usage
optimal.prob(x,  interval=NULL, N=NULL, like=NULL, ...)
optimal.theta(x, interval=NULL, N=NULL, like=NULL, ...)
##### Arguments
x

Ecosystem vector or species count table

interval

Bracketing interval for probability of mutation to be passed to the optimization routine (here optimize()). Default of NULL means to use a wide interval. Note that this argument is interpreted as an interval of $\theta$ for both optimal.prob() and optimal.theta().

N

Integer; the number of parametric resampled estimates to give. Default of NULL means to return just the maximum likelihood estimate

like

Units of likelihood to calculate credible interval. Edwards recommends using 2

Further arguments passed to optimize()

##### Note

The fundamental biodiversity parameter $\theta$ is $2\nu J$, where $\nu$ is the probability of mutation (ie, as estimated by optimal.prob()), and $J$ is the size of the ecosystem.

For the general case of dispersal limitation, see functions etienne() and optimal.params().

etienne,optimal.params.sloss,optimal.params.gst

##### Aliases
• optimal.prob
• optimal.theta
##### Examples
# NOT RUN {
data(butterflies)
optimal.prob(butterflies)
optimal.theta(butterflies)
# }

Documentation reproduced from package untb, version 1.7-4, License: GPL

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