untb: 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.

AuthorRobin K. S. Hankin
Date of publication2013-12-12 20:26:25
MaintainerRobin K. S. Hankin <hankin.robin@gmail.com>
LicenseGPL
Version1.7-2
http://www.r-project.org

View on CRAN

Man pages

alonso: Various functions from Alonso and McKane 2004

bci: Barro Colorado Island (BCI) dataset

butterflies: abundance data for butterflies

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

expected.abundance: Expected abundances under the neutral model

extractor: Extract rows of a database in count form

fisher: Various functionality to implement Fisher's logseries

ghats: Tree counts in 1-ha plots from the Western Ghats mountains...

isolate: Randomly select a subset of an ecosystem

logkda: Etienne's K(D,A)

logS1: logarithms of Stirling numbers of the first kind

no.of.ind: Ecosystem diagnostics

optimal.params.gst: Estimation of local immigration using GST(k) statistics

optimal.params.sloss: Estimation of neutral community parameters using a two-stage...

optimal.prob: Returns an estimate of the fundamental biodiversity number

phi: Hubbell's phi

plot.count: Abundance curves

plus: Add two count objects

preston: Preston diagram of an ecosystem

print.preston: Print and plot objects of class Preston

print.summary.count: Print method for summary objects

rand.neutral: Random neutral ecosystem

sahfos: Biodiversity dataset provided by SAHFOS

saunders: Dataset due to Saunders

simpson: Simpson's diversity index

species.count: Ecosystem diagnostics for output of untb()

spitale: Counts of diatom species in springs of the Adamello-Brenta...

summary: Summary methods for count and census objects

theta.prob: Posterior probabilities for theta

untb: Ecological drift simulation under the Unified Neutral Theory...

untb.package: Unified neutral theory of biodiversity

vallade: Various functions from Vallade and Houchmandzadeh

volkov: Expected frequency of species

zsm: Zero sum multinomial distribution as derived by McKane

Files in this package

untb
untb/inst
untb/inst/CITATION
untb/inst/doc
untb/inst/doc/untbpaper.pdf
untb/inst/doc/untbpaper.R
untb/inst/doc/untbpaper.Rnw
untb/NAMESPACE
untb/demo
untb/demo/untb.R
untb/demo/00Index
untb/data
untb/data/ostracod.rda
untb/data/sahfos.rda
untb/data/butterflies.rda
untb/data/ghats.rda
untb/data/copepod.rda
untb/data/saunders.rda
untb/data/spitale.rda
untb/data/caruso.rda
untb/R
untb/R/untb.R
untb/R/sysdata.rda
untb/R/munoz.R
untb/vignettes
untb/vignettes/dat.Rdata
untb/vignettes/rn.Rdata
untb/vignettes/synthetic_spp.Rdata
untb/vignettes/a_logkda.Rdata
untb/vignettes/untb.bib
untb/vignettes/untbpaper.Rnw
untb/MD5
untb/build
untb/build/vignette.rds
untb/DESCRIPTION
untb/man
untb/man/logS1.Rd untb/man/ghats.Rd untb/man/plot.count.Rd untb/man/rand.neutral.Rd untb/man/butterflies.Rd untb/man/untb.package.Rd untb/man/simpson.Rd untb/man/optimal.params.sloss.Rd untb/man/print.preston.Rd untb/man/alonso.Rd untb/man/bci.Rd untb/man/isolate.Rd untb/man/optimal.prob.Rd untb/man/vallade.Rd untb/man/zsm.Rd untb/man/etienne.Rd untb/man/untb.Rd untb/man/fisher.Rd untb/man/spitale.Rd untb/man/display.untb.Rd untb/man/volkov.Rd untb/man/plus.Rd untb/man/census.Rd untb/man/sahfos.Rd untb/man/extractor.Rd untb/man/species.count.Rd untb/man/preston.Rd untb/man/phi.Rd untb/man/print.summary.count.Rd untb/man/no.of.ind.Rd untb/man/count.Rd untb/man/theta.prob.Rd untb/man/saunders.Rd untb/man/expected.abundance.Rd untb/man/copepod.Rd untb/man/caruso.Rd untb/man/summary.Rd untb/man/optimal.params.gst.Rd untb/man/logkda.Rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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All documentation is copyright its authors; we didn't write any of that.