untb v1.6-4
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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 | |
| plot.count | Abundance curves | |
| alonso | Various functions from Alonso and McKane 2004 | |
| count | Construct, coerce, and test for a count object | |
| preston | Preston diagram of an ecosystem | |
| bci | Barro Colorado Island (BCI) dataset | |
| fisher | Various functionality to implement Fisher's logseries | |
| optimal.params.sloss | Estimation of neutral community parameters using a two-stage maximum-likelihood procedure | |
| no.of.ind | Ecosystem diagnostics | |
| untb | Ecological drift simulation under the Unified Neutral Theory of Biodiversity | |
| print.preston | Print and plot objects of class Preston | |
| expected.abundance | Expected abundances under the neutral model | |
| isolate | Randomly select a subset of an ecosystem | |
| extractor | Extract rows of a database in count form | |
| caruso | Dataset due to Caruso | |
| ghats | Tree counts in 1-ha plots from the Western Ghats mountains (South India) | |
| optimal.params.gst | Estimation of local immigration using GST(k) statistics | |
| simpson | Simpson's diversity index | |
| species.count | Ecosystem diagnostics for output of untb() | |
| butterflies | abundance data for butterflies | |
| display.untb | Animation of neutral ecological drift | |
| rand.neutral | Random neutral ecosystem | |
| theta.prob | Posterior probabilities for theta | |
| vallade | Various functions from Vallade and Houchmandzadeh | |
| untb-package | Unified neutral theory of biodiversity | |
| etienne | Etienne's sampling formula | |
| logS1 | logarithms of Stirling numbers of the first kind | |
| +.count | Add two count objects | |
| phi | Hubbell's phi | |
| copepod | Copepod data supplied by Phil Pugh | |
| logkda | Etienne's K(D,A) | |
| volkov | Expected frequency of species | |
| sahfos | Biodiversity dataset provided by SAHFOS | |
| summary.count | Summary methods for count and census objects | |
| census | Construct, coerce, and test for a census object | |
| optimal.prob | Returns an estimate of the fundamental biodiversity number | |
| saunders | Dataset due to Saunders | |
| print.summary.count | Print method for summary objects | |
| zsm | Zero sum multinomial distribution as derived by McKane | |
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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 | 2010-10-20 09:13:38 UTC; rksh |
| Repository | CRAN |
| Date/Publication | 2010-10-20 13:56:57 |
| depends | Brobdingnag , partitions , polynom , vegan |
| Contributors | Robin S. Hankin |
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