untb v1.7-3
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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 | |
| count | Construct, coerce, and test for a count object | |
| alonso | Various functions from Alonso and McKane 2004 | |
| display.untb | Animation of neutral ecological drift | |
| butterflies | abundance data for butterflies | |
| bci | Barro Colorado Island (BCI) dataset | |
| etienne | Etienne's sampling formula | |
| caruso | Dataset due to Caruso | |
| expected.abundance | Expected abundances under the neutral model | |
| optimal.params.sloss | Estimation of neutral community parameters using a two-stage maximum-likelihood procedure | |
| optimal.params.gst | Estimation of local immigration using GST(k) statistics | |
| optimal.prob | Returns an estimate of the fundamental biodiversity number | |
| census | Construct, coerce, and test for a census object | |
| extractor | Extract rows of a database in count form | |
| copepod | Copepod data supplied by Phil Pugh | |
| simpson | Simpson's diversity index | |
| fisher | Various functionality to implement Fisher's logseries | |
| preston | Preston diagram of an ecosystem | |
| logS1 | logarithms of Stirling numbers of the first kind | |
| +.count | Add two count objects | |
| logkda | Etienne's K(D,A) | |
| saunders | Dataset due to Saunders | |
| ghats | Tree counts in 1-ha plots from the Western Ghats mountains (South India) | |
| untb-package | Unified neutral theory of biodiversity | |
| isolate | Randomly select a subset of an ecosystem | |
| rand.neutral | Random neutral ecosystem | |
| no.of.ind | Ecosystem diagnostics | |
| sahfos | Biodiversity dataset provided by SAHFOS | |
| summary.count | Summary methods for count and census objects | |
| theta.prob | Posterior probabilities for theta | |
| phi | Hubbell's phi | |
| spitale | Counts of diatom species in springs of the Adamello-Brenta Nature Park | |
| plot.count | Abundance curves | |
| species.count | Ecosystem diagnostics for output of untb() | |
| print.preston | Print and plot objects of class Preston | |
| volkov | Expected frequency of species | |
| print.summary.count | Print method for summary objects | |
| vallade | Various functions from Vallade and Houchmandzadeh | |
| zsm | Zero sum multinomial distribution as derived by McKane | |
| untb | Ecological drift simulation under the Unified Neutral Theory of Biodiversity | |
| No Results! | ||
Vignettes of untb
| Name | ||
| a_logkda.Rdata | ||
| dat.Rdata | ||
| rn.Rdata | ||
| synthetic_spp.Rdata | ||
| untb.bib | ||
| untbpaper.Rnw | ||
| No Results! | ||
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Details
| Type | Package |
| Date | 2018-02-02 |
| SystemRequirements | PARI/GP >= 2.3.0 [strongly recommended for logkda()] |
| License | GPL |
| Packaged | 2018-03-18 22:39:54 UTC; rhankin |
| NeedsCompilation | no |
| Repository | CRAN |
| Date/Publication | 2018-03-19 08:39:10 UTC |
| imports | Brobdingnag (>= 1.1-8) , partitions (>= 1.9-14) , polynom |
| depends | R (>= 2.10) |
| Contributors | Robin S. Hankin |
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