# Generalized Linear Latent Variable Models

## Documentation for package ‘gllvm’ version 1.3.1

- DESCRIPTION file.

## Help Pages

AICc | Corrected Akaike information criterion and number of observations
AICc.gllvm | Corrected Akaike information criterion and number of observations
anova.gllvm | Analysis Of Deviance for gllvm
coefplot | Plot covariate coefficients and confidence intervals
coefplot.gllvm | Plot covariate coefficients and confidence intervals
confint.gllvm | Confidence intervals for model parameters
ecoCoefs | Functions to extract ecological quantities of the latent variables from a GLLVM, if species are a quadratic function of the latent variables.
getLV | Extract latent variables
getLV.gllvm | Extract latent variables
getPredictErr | Extract prediction errors for latent variables from gllvm object
getPredictErr.gllvm | Extract prediction errors for latent variables from gllvm object
getResidualCor | Extract residual correlations from gllvm object
getResidualCor.gllvm | Extract residual correlations from gllvm object
getResidualCov | Extract residual covariance matrix from gllvm object
getResidualCov.gllvm | Extract residual covariance matrix from gllvm object
gllvm | Generalized Linear Latent Variable Models
logLik.gllvm | Log-likelihood of gllvm
microbialdata | Microbial community data
nobs | Corrected Akaike information criterion and number of observations
nobs.gllvm | Corrected Akaike information criterion and number of observations
optima | Functions to extract ecological quantities of the latent variables from a GLLVM, if species are a quadratic function of the latent variables.
optima.gllvm | Functions to extract ecological quantities of the latent variables from a GLLVM, if species are a quadratic function of the latent variables.
ordiplot | Plot latent variables from gllvm model
ordiplot.gllvm | Plot latent variables from gllvm model
plot.gllvm | Plot Diagnostics for an gllvm Object
predict | Predict Method for gllvm Fits
predict.gllvm | Predict Method for gllvm Fits
predictLVs | Predict latent variables for gllvm Fits
predictLVs.gllvm | Predict latent variables for gllvm Fits
print.summary.gllvm | Summarizing gllvm model fits
randomCoefplot | Plot random slope coefficients
randomCoefplot.gllvm | Plot random slope coefficients
residuals.gllvm | Dunn-Smyth residuals for gllvm model
se | Standard errors for gllvm model
se.gllvm | Standard errors for gllvm model
simulate | Simulate data from gllvm fit
simulate.gllvm | Simulate data from gllvm fit
summary.gllvm | Summarizing gllvm model fits
tolerances | Functions to extract ecological quantities of the latent variables from a GLLVM, if species are a quadratic function of the latent variables.
tolerances.gllvm | Functions to extract ecological quantities of the latent variables from a GLLVM, if species are a quadratic function of the latent variables.
vcov | Returns variance-covariance matrix of coefficients in a GLLVM.
vcov.gllvm | Returns variance-covariance matrix of coefficients in a GLLVM.