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untb (version 1.6-2)

ecological drift under the UNTB

Description

A collection of utilities for biodiversity data. Includes the simulation of ecological drift under Hubbell's Unified Neutral Theory of Biodiversity, and the calculation of various diagnostics such as Preston curves. Now includes functionality provided by Francois Munoz and Andrea Manica.

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Version

Install

install.packages('untb')

Monthly Downloads

186

Version

1.6-2

License

GPL

Maintainer

Robin K S Hankin

Last Published

November 17th, 2009

Functions in untb (1.6-2)

census

Construct, coerce, and test for a census object
no.of.ind

Ecosystem diagnostics
count

Construct, coerce, and test for a count object
alonso

Various functions from Alonso and McKane 2004
theta.prob

Posterior probabilities for theta
extractor

Extract rows of a database in count form
logkda

Etienne's K(D,A)
caruso

Dataset due to Caruso
expected.abundance

Expected abundances under the neutral model
phi

Hubbell's phi
preston

Preston diagram of an ecosystem
vallade

Various functions from Vallade and Houchmandzadeh
species.count

Ecosystem diagnostics for output of untb()
isolate

Randomly select a subset of an ecosystem
summary.count

Summary methods for count and census objects
copepod

Copepod data supplied by Phil Pugh
ghats

Tree counts in 1-ha plots from the Western Ghats mountains (South India)
optimal.prob

Returns an estimate of the fundamental biodiversity number
fisher

Various functionality to implement Fisher's logseries
print.summary.count

Print method for summary objects
untb-package

Unified neutral theory of biodiversity
bci

Barro Colorado Island (BCI) dataset
etienne

Etienne's sampling formula
rand.neutral

Random neutral ecosystem
volkov

Expected frequency of species
saunders

Dataset due to Saunders
simpson

Simpson's diversity index
sahfos

Biodiversity dataset provided by SAHFOS
optimal.params.gst

Estimation of local immigration using GST(k) statistics
optimal.params.sloss

Estimation of neutral community parameters using a two-stage maximum-likelihood procedure
display.untb

Animation of neutral ecological drift
logS1

logarithms of Stirling numbers of the first kind
plot.count

Abundance curves
butterflies

abundance data for butterflies
print.preston

Print and plot objects of class Preston
+.count

Add two count objects
zsm

Zero sum multinomial distribution as derived by McKane
untb

Ecological drift simulation under the Unified Neutral Theory of Biodiversity