Ecological Drift under the UNTB

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Documentation for package ‘untb’ version 1.7-7-1

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untb-package Unified neutral theory of biodiversity
+.census Add two count objects
+.count Add two count objects
alonso.eqn11 Various functions from Alonso and McKane 2004
alonso.eqn12 Various functions from Alonso and McKane 2004
alonso.eqn6 Various functions from Alonso and McKane 2004
as.census Construct, coerce, and test for a census object
as.count Construct, coerce, and test for a count object
BCI Barro Colorado Island (BCI) dataset
bci Barro Colorado Island (BCI) dataset
butterflies abundance data for butterflies
butterfly abundance data for butterflies
Caruso Dataset due to Caruso
caruso Dataset due to Caruso
census Construct, coerce, and test for a census object
copepod Copepod data supplied by Phil Pugh
count Construct, coerce, and test for a count object
display.untb Animation of neutral ecological drift
Etienne Etienne's sampling formula
etienne Etienne's sampling formula
expected.abundance Expected abundances under the neutral model
extant Ecosystem diagnostics
extinct Ecosystem diagnostics
extractor Extract rows of a database in count form
fisher Various functionality to implement Fisher's logseries
fisher.ecosystem Various functionality to implement Fisher's logseries
fishers.alpha Various functionality to implement Fisher's logseries
ghats Tree counts in 1-ha plots from the Western Ghats mountains (South India)
GST.k Estimation of local immigration using GST(k) statistics
I.k Estimation of local immigration using GST(k) statistics
is.census Construct, coerce, and test for a census object
is.count Construct, coerce, and test for a count object
isolate Randomly select a subset of an ecosystem
logkda Etienne's K(D,A)
logkda.a11 Etienne's K(D,A)
logkda.pari Etienne's K(D,A)
logkda.polyn Etienne's K(D,A)
logkda.R Etienne's K(D,A)
logkda_pari_unix Etienne's K(D,A)
logkda_pari_windows Etienne's K(D,A)
logS1 logarithms of Stirling numbers of the first kind
logS1vect logarithms of Stirling numbers of the first kind
maximal.abundance Ecosystem diagnostics
no.of.extinct Ecosystem diagnostics
no.of.ind Ecosystem diagnostics
no.of.singletons Ecosystem diagnostics
no.of.spp Ecosystem diagnostics
optimal.params Etienne's sampling formula
optimal.params.gst Estimation of local immigration using GST(k) statistics
optimal.params.sloss Estimation of neutral community parameters using a two-stage maximum-likelihood procedure
optimal.prob Returns an estimate of the fundamental biodiversity number
optimal.theta Returns an estimate of the fundamental biodiversity number
Oribatid Dataset due to Caruso
oribatid Dataset due to Caruso
ostracod Copepod data supplied by Phil Pugh
phi Hubbell's phi
plot.census Abundance curves
plot.count Abundance curves
plot.preston Print and plot objects of class Preston
Preston Preston diagram of an ecosystem
preston Preston diagram of an ecosystem
print.preston Print and plot objects of class Preston
print.summary.census Print method for summary objects
print.summary.count Print method for summary objects
rand.neutral Random neutral ecosystem
sahfos Biodiversity dataset provided by SAHFOS
saunders Dataset due to Saunders
saunders.exposed Dataset due to Saunders
saunders.exposed.tot Dataset due to Saunders
saunders.sheltered Dataset due to Saunders
saunders.sheltered.tot Dataset due to Saunders
saunders.tot Dataset due to Saunders
select Ecological drift simulation under the Unified Neutral Theory of Biodiversity
select.immigrate Ecological drift simulation under the Unified Neutral Theory of Biodiversity
select.mutate Ecological drift simulation under the Unified Neutral Theory of Biodiversity
simpson Simpson's diversity index
singletons Ecosystem diagnostics
species.count Ecosystem diagnostics for output of untb()
species.table Ecosystem diagnostics for output of untb()
spitale Counts of diatom species in springs of the Adamello-Brenta Nature Park
summary.census Summary methods for count and census objects
summary.count Summary methods for count and census objects
theta.likelihood Posterior probabilities for theta
theta.prob Posterior probabilities for theta
unphi Hubbell's phi
untb Ecological drift simulation under the Unified Neutral Theory of Biodiversity
Vallade Various functions from Vallade and Houchmandzadeh
vallade Various functions from Vallade and Houchmandzadeh
vallade.eqn12 Various functions from Vallade and Houchmandzadeh
vallade.eqn14 Various functions from Vallade and Houchmandzadeh
vallade.eqn16 Various functions from Vallade and Houchmandzadeh
vallade.eqn17 Various functions from Vallade and Houchmandzadeh
vallade.eqn5 Various functions from Vallade and Houchmandzadeh
vallade.eqn7 Various functions from Vallade and Houchmandzadeh
volkov Expected frequency of species
zsm Zero sum multinomial distribution as derived by McKane