This package uses a probabilistic method to calculate niche regions and pairwise niche overlap using multidimensional niche indicator data (e.g., stable isotopes, environmental variables, etc.). The niche region is defined as the joint probability density function of the multidimensional niche indicators at a user-defined probability alpha (e.g., 95%). Uncertainty is accounted for in a Bayesian framework, and the method can be extended to three or more indicator dimensions. It provides directional estimates of niche overlap, accounts for species-specific distributions in multivariate niche space, and produces unique and consistent bivariate projections of the multivariate niche region. A forthcoming article by Swanson et al. (Ecology, 2014) provides a detailed description of the methodology. See the package vignette for a worked example using fish stable isotope data.

Install the latest version of this package by entering the following in R:

`install.packages("nicheROVER")`

Author | Martin Lysy [aut, cre], Ashley D. Stasko [aut, ctb], Heidi K. Swanson [aut, ctb] |

Date of publication | 2014-07-25 21:15:59 |

Maintainer | Martin Lysy <mlysy@uwaterloo.ca> |

License | GPL-2 |

Version | 1.0 |

**ellipse:** Point coordinates for a 2-D ellipse.

**fish:** Fish stable isotope dataset.

**niche.par.plot:** Plot for niche parameters

**niche.plot:** Plot for 2-d projection of niche regions

**nicheROVER:** (Niche) (R)egion and Niche (Over)lap Metrics for...

**niiw.post:** Random draws from the posterior distribution with...

**niw.coeffs:** Posterior coefficients of the Normal-Inverse-Wishart...

**niw.mom:** Mean and variance of the Normal-Inverse-Wishart distribution.

**niw.post:** Random draws from the posterior distribution with...

**overlap:** Monte Carlo calculation of niche region overlap metrics

**overlap.plot:** Plot the overlap metric

**rniw:** Random draws from a Normal-Inverse-Wishart distribution.

**rwish:** Random draws from a Wishart (or Inverse-Wishart)...

inst

inst/doc

inst/doc/ecol-vignette.html

inst/doc/ecol-vignette.R
inst/doc/ecol-vignette.Rmd

NAMESPACE

data

data/fish.rda

R

R/niw.coeffs.R
R/niche.par.plot.R
R/ellipse.R
R/niw.mom.R
R/rniw.R
R/nicheROVER-package.R
R/niiw.post.R
R/overlap.R
R/niche.plot.R
R/rwish.R
R/ecol-package2.R
R/overlap.plot.R
R/niw.post.R
vignettes

vignettes/ecol-vignette.Rmd

MD5

build

build/vignette.rds

DESCRIPTION

man

man/nicheROVER.Rd
man/niw.post.Rd
man/niw.coeffs.Rd
man/ellipse.Rd
man/niche.plot.Rd
man/overlap.Rd
man/overlap.plot.Rd
man/rniw.Rd
man/fish.Rd
man/niche.par.plot.Rd
man/niw.mom.Rd
man/niiw.post.Rd
man/rwish.Rd
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