untb v1.7-3

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

Name
a_logkda.Rdata
dat.Rdata
rn.Rdata
synthetic_spp.Rdata
untb.bib
untbpaper.Rnw
No Results!

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Details

Type Package
Date 2018-02-02
SystemRequirements PARI/GP >= 2.3.0 [strongly recommended for logkda()]
License GPL
Packaged 2018-03-18 22:39:54 UTC; rhankin
NeedsCompilation no
Repository CRAN
Date/Publication 2018-03-19 08:39:10 UTC

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