untb v1.6-2
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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 | |
| census | Construct, coerce, and test for a census object | |
| no.of.ind | Ecosystem diagnostics | |
| count | Construct, coerce, and test for a count object | |
| alonso | Various functions from Alonso and McKane 2004 | |
| theta.prob | Posterior probabilities for theta | |
| extractor | Extract rows of a database in count form | |
| logkda | Etienne's K(D,A) | |
| caruso | Dataset due to Caruso | |
| expected.abundance | Expected abundances under the neutral model | |
| phi | Hubbell's phi | |
| preston | Preston diagram of an ecosystem | |
| vallade | Various functions from Vallade and Houchmandzadeh | |
| species.count | Ecosystem diagnostics for output of untb() | |
| isolate | Randomly select a subset of an ecosystem | |
| summary.count | Summary methods for count and census objects | |
| copepod | Copepod data supplied by Phil Pugh | |
| ghats | Tree counts in 1-ha plots from the Western Ghats mountains (South India) | |
| optimal.prob | Returns an estimate of the fundamental biodiversity number | |
| fisher | Various functionality to implement Fisher's logseries | |
| print.summary.count | Print method for summary objects | |
| untb-package | Unified neutral theory of biodiversity | |
| bci | Barro Colorado Island (BCI) dataset | |
| etienne | Etienne's sampling formula | |
| rand.neutral | Random neutral ecosystem | |
| volkov | Expected frequency of species | |
| saunders | Dataset due to Saunders | |
| simpson | Simpson's diversity index | |
| sahfos | Biodiversity dataset provided by SAHFOS | |
| 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 | |
| display.untb | Animation of neutral ecological drift | |
| logS1 | logarithms of Stirling numbers of the first kind | |
| plot.count | Abundance curves | |
| butterflies | abundance data for butterflies | |
| print.preston | Print and plot objects of class Preston | |
| +.count | Add two count objects | |
| zsm | Zero sum multinomial distribution as derived by McKane | |
| untb | Ecological drift simulation under the Unified Neutral Theory of Biodiversity | |
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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 | 2009-11-16 22:54:30 UTC; rksh |
| Repository | CRAN |
| Date/Publication | 2009-11-17 11:36:55 |
| depends | Brobdingnag , partitions , polynom , vegan |
| Contributors | Robin S. Hankin |
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