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 <firstname.lastname@example.org>|
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