untb v1.6-5

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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
extractor Extract rows of a database in count form
ghats Tree counts in 1-ha plots from the Western Ghats mountains (South India)
isolate Randomly select a subset of an ecosystem
logkda Etienne's K(D,A)
optimal.params.gst Estimation of local immigration using GST(k) statistics
preston Preston diagram of an ecosystem
simpson Simpson's diversity index
saunders Dataset due to Saunders
summary.count Summary methods for count and census objects
rand.neutral Random neutral ecosystem
vallade Various functions from Vallade and Houchmandzadeh
alonso Various functions from Alonso and McKane 2004
untb-package Unified neutral theory of biodiversity
butterflies abundance data for butterflies
copepod Copepod data supplied by Phil Pugh
caruso Dataset due to Caruso
count Construct, coerce, and test for a count object
phi Hubbell's phi
census Construct, coerce, and test for a census object
etienne Etienne's sampling formula
untb Ecological drift simulation under the Unified Neutral Theory of Biodiversity
species.count Ecosystem diagnostics for output of untb()
expected.abundance Expected abundances under the neutral model
display.untb Animation of neutral ecological drift
fisher Various functionality to implement Fisher's logseries
sahfos Biodiversity dataset provided by SAHFOS
zsm Zero sum multinomial distribution as derived by McKane
print.summary.count Print method for summary objects
logS1 logarithms of Stirling numbers of the first kind
no.of.ind Ecosystem diagnostics
print.preston Print and plot objects of class Preston
theta.prob Posterior probabilities for theta
optimal.prob Returns an estimate of the fundamental biodiversity number
optimal.params.sloss Estimation of neutral community parameters using a two-stage maximum-likelihood procedure
volkov Expected frequency of species
plot.count Abundance curves
+.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 2011-03-17 07:50:30 UTC; rksh
Repository CRAN
Date/Publication 2011-03-18 07:32:49

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