Bayesian approaches for analyzing multivariate data in ecology. Estimation is performed using Markov Chain Monte Carlo (MCMC) methods via JAGS. Three types of models may be fitted: 1) With explanatory variables only, boral fits independent column GLMs to each column of the response matrix; 2) With latent variables only, boral fits a purely latent variable model for model-based unconstrained ordination; 3) With explanatory and latent variables, boral fits correlated column GLMs with latent variables to account for any residual correlation between the columns of the response matrix.

Author | Francis K.C. Hui |

Date of publication | 2017-01-02 22:22:18 |

Maintainer | Francis Hui <fhui28@gmail.com> |

License | GPL-2 |

Version | 1.2 |

**about.distributions:** Distributions available in boral

**about.ssvs:** Stochastic search variable selection (SSVS) in boral

**about.traits:** Including species traits in boral

**boral:** Fitting boral (Bayesian Ordination and Regression AnaLysis)...

**boral-package:** Bayesian Ordination and Regression AnaLysis (boral)

**calc.condlogLik:** Conditional log-likelihood for an boral model

**calc.logLik.lv0:** Log-likelihood for a boral model with no latent variables

**calc.marglogLik:** Marginal log-likelihood for an boral model

**coefsplot:** Caterpillar plots of the regression coefficients from a boral...

**create.life:** Simulate a Multivariate Response Matrix

**ds.residuals:** Dunn-Smyth Residuals for a boral model

**fitted.boral:** Extract Model Fitted Values for an boral object

**get.dic:** Extract Deviance Information Criterion for boral model

**get.enviro.cor:** Extract covariances and correlations due to shared...

**get.hpdintervals:** Highest posterior density intervals for an boral model

**get.measures:** Information Criteria for boral models

**get.more.measures:** Additional Information Criteria for boral models

**get.residual.cor:** Extract residual correlations from boral models

**lvsplot:** Plot the latent variables from an boral model

**make.jagsboralmodel:** Write a text file containing an boral model for use into JAGS

**make.jagsboralnullmodel:** Write a text file containing an boral model for use into JAGS

**plot.boral:** Plots of a fitted boral object

**summary.boral:** Summary of fitted boral object

boral

boral/inst

boral/inst/NEWS.Rd

boral/NAMESPACE

boral/R

boral/R/makejagsboralmodel.R
boral/R/auxilaryfunctions.R
boral/R/makejagsboralnullmodel.R
boral/R/unseenfunctions.R
boral/R/boral.jags.R
boral/MD5

boral/DESCRIPTION

boral/man

boral/man/about.ssvs.Rd
boral/man/make.jagsboralnullmodel.Rd
boral/man/boral.Rd
boral/man/get.hpdintervals.Rd
boral/man/create.life.Rd
boral/man/calc.marglogLik.Rd
boral/man/about.traits.Rd
boral/man/get.enviro.cor.Rd
boral/man/make.jagsboralmodel.Rd
boral/man/coefsplot.Rd
boral/man/fitted.boral.Rd
boral/man/get.measures.Rd
boral/man/ds.residuals.Rd
boral/man/plot.boral.Rd
boral/man/about.distributions.Rd
boral/man/summary.boral.Rd
boral/man/lvsplot.Rd
boral/man/calc.condlogLik.Rd
boral/man/get.residual.cor.Rd
boral/man/calc.logLik.lv0.Rd
boral/man/boral-package.Rd
boral/man/get.more.measures.Rd
boral/man/get.dic.Rd
Questions? Problems? Suggestions? Tweet to @rdrrHQ or email at ian@mutexlabs.com.

All documentation is copyright its authors; we didn't write any of that.