untb v1.6-3

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ecological drift under the UNTB

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.

Functions in untb

Name Description
optimal.prob Returns an estimate of the fundamental biodiversity number
volkov Expected frequency of species
bci Barro Colorado Island (BCI) dataset
butterflies abundance data for butterflies
census Construct, coerce, and test for a census object
zsm Zero sum multinomial distribution as derived by McKane
sahfos Biodiversity dataset provided by SAHFOS
optimal.params.sloss Estimation of neutral community parameters using a two-stage maximum-likelihood procedure
saunders Dataset due to Saunders
isolate Randomly select a subset of an ecosystem
ghats Tree counts in 1-ha plots from the Western Ghats mountains (South India)
theta.prob Posterior probabilities for theta
species.count Ecosystem diagnostics for output of untb()
simpson Simpson's diversity index
phi Hubbell's phi
extractor Extract rows of a database in count form
vallade Various functions from Vallade and Houchmandzadeh
display.untb Animation of neutral ecological drift
optimal.params.gst Estimation of local immigration using GST(k) statistics
print.preston Print and plot objects of class Preston
etienne Etienne's sampling formula
count Construct, coerce, and test for a count object
summary.count Summary methods for count and census objects
untb Ecological drift simulation under the Unified Neutral Theory of Biodiversity
no.of.ind Ecosystem diagnostics
plot.count Abundance curves
logS1 logarithms of Stirling numbers of the first kind
caruso Dataset due to Caruso
preston Preston diagram of an ecosystem
print.summary.count Print method for summary objects
logkda Etienne's K(D,A)
alonso Various functions from Alonso and McKane 2004
copepod Copepod data supplied by Phil Pugh
expected.abundance Expected abundances under the neutral model
fisher Various functionality to implement Fisher's logseries
rand.neutral Random neutral ecosystem
untb-package Unified neutral theory of biodiversity
+.count Add two count objects
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Details

Type Package
Date 2009-26-02
SystemRequirements PARI/GP >= 2.3.0 [strongly recommended for logkda()]
License GPL
URL http://www.r-project.org
Packaged 2010-03-16 20:50:19 UTC; rksh
Repository CRAN
Date/Publication 2010-04-03 07:59:59

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