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 |
beetle |
ground beetle assemblages |
coefplot |
Plot covariate coefficients and confidence intervals |
coefplot.gllvm |
Plot covariate coefficients and confidence intervals |
confint |
Confidence intervals for model parameters |
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. |
eSpider |
Hunting spider data |
fungi |
Wood-decaying fungi data |
getEnvironCor |
Extract species covariances due to environmental random effects from gllvm object |
getEnvironCor.gllvm |
Extract species covariances due to environmental random effects from gllvm object |
getEnvironCov |
Extract species covariances due to environmental random effects from gllvm object |
getEnvironCov.gllvm |
Extract species covariances due to environmental random effects from gllvm object |
getLoadings |
Extract loadings |
getLoadings.gllvm |
Extract loadings |
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 |
kelpforest |
Kelp Forest community Dynamics: Cover of sessile organisms, Uniform Point Contact |
logLik |
Log-likelihood of gllvm |
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 |
phyloplot |
Plot phylogenetic random effects from gllvm |
phyloplot.gllvm |
Plot phylogenetic random effects from gllvm |
plot.gllvm |
Plot Diagnostics for an gllvm Object |
plot.summary.gllvm |
Summarizing gllvm model fits |
plotVarPartitioning |
Calculate variance partitioning |
plotVP |
Calculate variance partitioning |
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 |
Skabbholmen |
Skabbholmen island data |
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. |
varPartitioning |
Calculate variance partitioning |
varPartitioning.gllvm |
Calculate variance partitioning |
vcov |
Returns variance-covariance matrix of coefficients in a GLLVM. |
vcov.gllvm |
Returns variance-covariance matrix of coefficients in a GLLVM. |
VP |
Calculate variance partitioning |