untb v1.6-1

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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
butterflies abundance data for butterflies
isolate Randomly select a subset of an ecosystem
summary.count Summary methods for count and census objects
ghats Tree counts in 1-ha plots from the Western Ghats mountains (South India)
print.preston Print and plot objects of class Preston
+.count Add two count objects
preston Preston diagram of an ecosystem
phi Hubbell's phi
logS1 logarithms of Stirling numbers of the first kind
optimal.prob Returns an estimate of the fundamental biodiversity number
optimal.params.gst Estimation of local immigration using GST(k) statistics
logkda Etienne's K(D,A)
no.of.ind Ecosystem diagnostics
saunders Dataset due to Saunders
optimal.params.sloss Estimation of neutral community parameters using a two-stage maximum-likelihood procedure
simpson Simpson's diversity index
caruso Dataset due to Caruso
extractor Extract rows of a database in count form
plot.count Abundance curves
zsm Zero sum multinomial distribution as derived by McKane
untb Ecological drift simulation under the Unified Neutral Theory of Biodiversity
untb-package Unified neutral theory of biodiversity
vallade Various functions from Vallade and Houchmandzadeh
copepod Copepod data supplied by Phil Pugh
sahfos Biodiversity dataset provided by SAHFOS
volkov Expected frequency of species
display.untb Animation of neutral ecological drift
fisher Various functionality to implement Fisher's logseries
print.summary.count Print method for summary objects
census Construct, coerce, and test for a census object
theta.prob Posterior probabilities for theta
alonso Various functions from Alonso and McKane 2004
etienne Etienne's sampling formula
species.count Ecosystem diagnostics for output of untb()
expected.abundance Expected abundances under the neutral model
count Construct, coerce, and test for a count object
rand.neutral Random neutral ecosystem
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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 2009-10-11 19:25:49 UTC; rksh
Repository CRAN
Date/Publication 2009-10-15 11:09:11

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