Bayesian Ordination and Regression AnaLysis

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Documentation for package ‘boral’ version 2.0.3

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boral-package Bayesian Ordination and Regression AnaLysis (boral)
about.distributions Distributions available in boral
about.lvs Correlation structure for latent variables
about.ranefs Including response-specific random intercepts 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) models
boral.default Fitting boral (Bayesian Ordination and Regression AnaLysis) models
calc.condlogLik Conditional log-likelihood for a fitted model
calc.logLik.lv0 Log-likelihood for a model fitted with no latent variables
calc.marglogLik Marginal log-likelihood for a fitted model
calc.varpart Variance partitioning for a latent variable model
coefsplot Caterpillar plots of the regression coefficients from a fitted model
create.life \Sexpr[results=rd, stage=render]{lifecycle::badge("stable")} Simulate a Multivariate response matrix
ds.residuals Dunn-Smyth Residuals for a fitted model
fitted.boral Extract Model Fitted Values for an boral object
get.dic Extract Deviance Information Criterion for a fitted model
get.enviro.cor Extract covariances and correlations due to shared environmental responses
get.hpdintervals Highest posterior density intervals for a fitted model
get.mcmcsamples Extract MCMC samples from models
get.measures Information Criteria for models
get.more.measures Additional Information Criteria for models
get.residual.cor Extract residual correlations and precisions from models
lvsplot Plot the latent variables from a fitted model
make.jagsboralmodel Write a text file containing a model for use into JAGS
make.jagsboralnullmodel Write a text file containing a model for use into JAGS
plot.boral Plots of a fitted boral object
predict.boral Predict using a model
print.boral Fitting boral (Bayesian Ordination and Regression AnaLysis) models
print.summary.boral Summary of fitted boral object
ranefsplot Caterpillar plots of response-specific random effects from a fitted model
simulate.boral \Sexpr[results=rd, stage=render]{lifecycle::badge("stable")} Simulate a Multivariate response matrix
summary.boral Summary of fitted boral object
tidyboral Reformats output from a boral fit