R: Implementation of Sampling Formulas for the Unified Neutral Model of Biodiversity and Biogeography, with or without Guild Structure

# Implementation of Sampling Formulas for the Unified Neutral Model of Biodiversity and Biogeography, with or without Guild Structure

## Documentation for package ‘GUILDS’ version 1.4.4

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

expected.SAD | Calculate the expected species abundance distribution of the standard neutral model, given theta, m and J
expected.SAD.Guilds | Estimate the expected species abundance distribution of both guilds using the guilds model, provided theta, alpha_x, alpha_y and J.
expected.SAD.Guilds.Conditional | Estimate the expected species abundance distribution of both guilds using the guilds model, provided theta, alpha_x, alpha_y, conditional on the size of guild X, Jx and the size of guild Y, Jy.
generate.ESF | Generate community data under the standard neutral model of biodiversity, using the urn scheme as described in Etienne 2005
generate.Guilds | Generate Artificial data under the GUILDS model
generate.Guilds.Cond | Generate Artificial data under the GUILDS model, conditioned on Guild size
GUILDS | Package implementing the Guilds sampling formula for the Neutral Theory of Biodiversity
logLikelihood.ESF | Likelihood of the Etienne sampling formula
logLikelihood.Guilds | Likelihood of the Guilds sampling formula
logLikelihood.Guilds.Conditional | Likelihood of the Guilds sampling formula, conditional on guild size
maxLikelihood.ESF | Maximization of the loglikelihood given the standard Neutral Model, using the Etienne Sampling Formula
maxLikelihood.Guilds | Maximization of the loglikelihood under the Guilds Model.
maxLikelihood.Guilds.Conditional | Maximization of the loglikelihood under the Guilds Model, conditioned on guild size.
preston_plot | Barplot in Preston style of an abundance dataset