PLN                     Poisson lognormal model
PLNLDA                  Poisson lognormal model towards Linear
                        Disciminant Analysis
PLNLDAfit               An R6 Class to represent a PLNfit in a LDA
                        framework
PLNPCA                  Poisson lognormal model towards Principal
                        Component Analysis
PLNPCAfamily            An R6 Class to represent a collection of
                        PLNPCAfit
PLNPCAfit               An R6 Class to represent a PLNfit in a PCA
                        framework
PLNfamily               An R6 Class to represent a collection of PLNfit
PLNfit                  An R6 Class to represent a PLNfit in a
                        standard, general framework
PLNmodels               PLNmodels
PLNnetwork              Poisson lognormal model towards sparse network
                        inference
PLNnetworkfamily        An R6 Class to represent a collection of
                        PLNnetworkfit
PLNnetworkfit           An R6 Class to represent a PLNfit in a sparse
                        inverse covariance framework
coef.PLNLDAfit          Extracts model coefficients from objects
                        returned by 'PLNLDA'
coef.PLNfit             Extract model coefficients
coefficient_path        Extract the regularization path of a PLNnetwork
                        fit
compute_offset          Compute offsets from a count data using one of
                        several normalization schemes
extract_probs           Extract edge selection frequency in bootstrap
                        subsamples
fisher                  Fisher information matrix for Theta
fitted.PLNfit           Extracts model fitted values from objects
                        returned by 'PLN' and its variants
getBestModel.PLNPCAfamily
                        Best model extraction from a collection of
                        models
getModel.PLNPCAfamily   Model extraction from a collection of models
mollusk                 Mollusk data set
plot.PLNLDAfit          LDA vizualiation (individual and/or variable
                        factor map(s)) for a 'PLNPCAfit' object
plot.PLNPCAfamily       Display the criteria associated with a
                        collection of PLNPCA fits (a PLNPCAfamily)
plot.PLNPCAfit          PCA vizualiation (individual and/or variable
                        factor map(s)) for a 'PLNPCAfit' object
plot.PLNnetworkfamily   Display various ouputs (goodness-of-fit
                        criteria, robustness, diagnostic) associated
                        with a collection of PLNnetwork fits (a
                        PLNnetworkfamily)
plot.PLNnetworkfit      Extract and plot the network (aprtial
                        correlation, support or inverse covariance)
                        from a 'PLNnetworkfit' object
predict.PLNLDAfit       Predict group of new samples
predict.PLNfit          Predict counts of a new sample
prepare_data            Prepare data for use in PLN models
rPLN                    PLN RNG
sigma.PLNfit            Extract variance-covariance of residuals
                        'Sigma'
stability_selection     Compute the stability path by stability
                        selection
standard_error          Component-wise standard errors of Theta
trichoptera             Trichoptera data set
vcov.PLNfit             Calculate Variance-Covariance Matrix for a
                        fitted 'PLN' model object
