In RobinHankin/untb: Ecological Drift under the UNTB

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The untb package provides R-centric functionality for working with Hubbell's unified neutral theory of biogeography and biodiversity. A vignette is provided in the package. The canonical reference is Hubbell 2001; to cite the package in publications please use Hankin 2007.

Installation

You can install the released version of the untb package from CRAN with:

# install.packages("untb")  # uncomment this to install the package
library("untb")
set.seed(0)

The untb package in use

The package has two main classes, count and census. A count object is a named integer vector, with names being species and entries being respective counts. Thus:

x <- count(c(cats=9,pigs=3,dogs=2,rats=1,hogs=1,bats=1))
x
summary(x)

Above, we see 9 cats, 3 pigs, and so on. Function summary() gives further information. A census object is an unordered factor with entries being the species of each individual:

as.census(x)

The package includes example datasets:

data(sahfos)
summary(sahfos)

We can give a visual summary of a dataset in two ways:

plot(sahfos)
plot(preston(sahfos))

The package also includes the ability to generate random neutral assemblages:

summary(rand.neutral(1000,10))
summary(rand.neutral(1000,10))

References

• S. P. Hubbell 2001. "The Unified Neutral Theory of Biodiversity and Biogeography", Princeton University Press.

• R. K. S. Hankin, 2007. "Introducing untb, an R package for simulating ecological drift under the unified nuetral theory of biodiversity", Journal of Statistical Software 22(12)

RobinHankin/untb documentation built on Dec. 7, 2024, 6:30 p.m.