untb v1.7-2
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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 | |
| alonso | Various functions from Alonso and McKane 2004 | |
| fisher | Various functionality to implement Fisher's logseries | |
| count | Construct, coerce, and test for a count object | |
| simpson | Simpson's diversity index | |
| vallade | Various functions from Vallade and Houchmandzadeh | |
| optimal.prob | Returns an estimate of the fundamental biodiversity number | |
| isolate | Randomly select a subset of an ecosystem | |
| bci | Barro Colorado Island (BCI) dataset | |
| expected.abundance | Expected abundances under the neutral model | |
| caruso | Dataset due to Caruso | |
| preston | Preston diagram of an ecosystem | |
| phi | Hubbell's phi | |
| optimal.params.sloss | Estimation of neutral community parameters using a two-stage maximum-likelihood procedure | |
| spitale | Counts of diatom species in springs of the Adamello-Brenta Nature Park | |
| species.count | Ecosystem diagnostics for output of untb() | |
| sahfos | Biodiversity dataset provided by SAHFOS | |
| census | Construct, coerce, and test for a census object | |
| zsm | Zero sum multinomial distribution as derived by McKane | |
| logS1 | logarithms of Stirling numbers of the first kind | |
| summary.count | Summary methods for count and census objects | |
| extractor | Extract rows of a database in count form | |
| copepod | Copepod data supplied by Phil Pugh | |
| untb-package | Unified neutral theory of biodiversity | |
| theta.prob | Posterior probabilities for theta | |
| untb | Ecological drift simulation under the Unified Neutral Theory of Biodiversity | |
| +.count | Add two count objects | |
| ghats | Tree counts in 1-ha plots from the Western Ghats mountains (South India) | |
| display.untb | Animation of neutral ecological drift | |
| optimal.params.gst | Estimation of local immigration using GST(k) statistics | |
| saunders | Dataset due to Saunders | |
| no.of.ind | Ecosystem diagnostics | |
| etienne | Etienne's sampling formula | |
| plot.count | Abundance curves | |
| print.preston | Print and plot objects of class Preston | |
| volkov | Expected frequency of species | |
| butterflies | abundance data for butterflies | |
| print.summary.count | Print method for summary objects | |
| logkda | Etienne's K(D,A) | |
| rand.neutral | Random neutral ecosystem | |
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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 | 2013-12-12 18:58:21 UTC; rhankin |
| NeedsCompilation | no |
| Repository | CRAN |
| Date/Publication | 2013-12-12 20:26:25 |
| depends | base (>= 2.10) , R (>= 2.10) |
| imports | Brobdingnag (>= 1.1-8) , partitions (>= 1.9-14) , polynom |
| Contributors | Robin S. Hankin |
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