untb v1.6-9

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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
bci Barro Colorado Island (BCI) dataset
count Construct, coerce, and test for a count object
logS1 logarithms of Stirling numbers of the first kind
theta.prob Posterior probabilities for theta
butterflies abundance data for butterflies
summary.count Summary methods for count and census objects
optimal.params.gst Estimation of local immigration using GST(k) statistics
fisher Various functionality to implement Fisher's logseries
logkda Etienne's K(D,A)
sahfos Biodiversity dataset provided by SAHFOS
no.of.ind Ecosystem diagnostics
etienne Etienne's sampling formula
isolate Randomly select a subset of an ecosystem
untb Ecological drift simulation under the Unified Neutral Theory of Biodiversity
volkov Expected frequency of species
zsm Zero sum multinomial distribution as derived by McKane
optimal.params.sloss Estimation of neutral community parameters using a two-stage maximum-likelihood procedure
print.preston Print and plot objects of class Preston
display.untb Animation of neutral ecological drift
species.count Ecosystem diagnostics for output of untb()
untb-package Unified neutral theory of biodiversity
copepod Copepod data supplied by Phil Pugh
spitale Counts of diatom species in springs of the Adamello-Brenta Nature Park
expected.abundance Expected abundances under the neutral model
extractor Extract rows of a database in count form
alonso Various functions from Alonso and McKane 2004
caruso Dataset due to Caruso
ghats Tree counts in 1-ha plots from the Western Ghats mountains (South India)
plot.count Abundance curves
print.summary.count Print method for summary objects
optimal.prob Returns an estimate of the fundamental biodiversity number
phi Hubbell's phi
rand.neutral Random neutral ecosystem
census Construct, coerce, and test for a census object
preston Preston diagram of an ecosystem
+.count Add two count objects
saunders Dataset due to Saunders
vallade Various functions from Vallade and Houchmandzadeh
simpson Simpson's diversity index
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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 2011-12-26 22:24:37 UTC; rksh
Repository CRAN
Date/Publication 2011-12-27 10:06:25

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