Package ‘boral’ March 12, 2021 Title Bayesian Ordination and Regression AnaLysis Version 2.0 Date 2021-04-01 Author Francis K.C. Hui [aut, cre], Wade Blanchard [aut] Maintainer Francis K.C. Hui <
[email protected]> Description Bayesian approaches for analyzing multivariate data in ecology. Estimation is per- formed using Markov Chain Monte Carlo (MCMC) methods via Three. JAGS types of mod- els may be fitted: 1) With explanatory variables only, boral fits independent column General- ized Linear Models (GLMs) to each column of the response matrix; 2) With latent vari- ables only, boral fits a purely latent variable model for model-based unconstrained ordina- tion; 3) With explanatory and latent variables, boral fits correlated column GLMs with la- tent variables to account for any residual correlation between the columns of the response matrix. License GPL-2 Depends coda Imports abind, corpcor, fishMod, graphics, grDevices, lifecycle, MASS, mvtnorm, R2jags, reshape2, stats Suggests mvabund (>= 4.0.1), corrplot NeedsCompilation no R topics documented: boral-package . .2 about.distributions . .3 about.lvs . .6 about.ranefs . .8 about.ssvs . 10 about.traits . 14 boral . 17 calc.condlogLik . 33 calc.logLik.lv0 . 37 calc.marglogLik . 40 1 2 boral-package calc.varpart . 44 coefsplot . 48 create.life . 51 ds.residuals . 59 fitted.boral . 61 get.dic . 63 get.enviro.cor . 64 get.hpdintervals . 66 get.mcmcsamples . 70 get.measures . 71 get.more.measures . 75 get.residual.cor . 79 lvsplot . 82 make.jagsboralmodel . 85 make.jagsboralnullmodel . 90 plot.boral . 95 predict.boral . 97 ranefsplot . 103 summary.boral . 105 tidyboral . 106 Index 110 boral-package Bayesian Ordination and Regression AnaLysis (boral) Description Bayesian approaches for analyzing multivariate data in ecology.