Best model extraction from a collection of models

Usage

# S3 method for class 'PLNPCAfamily'
getBestModel(Robject, crit = c("ICL", "BIC"), ...)

getBestModel(Robject, crit, ...)

# S3 method for class 'PLNmixturefamily'
getBestModel(Robject, crit = c("ICL", "BIC"), ...)

# S3 method for class 'Networkfamily'
getBestModel(Robject, crit = c("BIC", "EBIC", "StARS"), ...)

# S3 method for class 'PLNnetworkfamily'
getBestModel(Robject, crit = c("BIC", "EBIC", "StARS"), ...)

# S3 method for class 'ZIPLNnetworkfamily'
getBestModel(Robject, crit = c("BIC", "EBIC", "StARS"), ...)

Arguments

Robject: an object with class PLNPCAfamilly ot PLNnetworkfamily
crit: a character for the criterion used to performed the selection. Either "BIC", "ICL", "EBIC", "StARS", "R_squared". Default is ICL for PLNPCA, and BIC for PLNnetwork. If StARS (Stability Approach to Regularization Selection) is chosen and stability selection was not yet performed, the function will call the method stability_selection() with default argument.
...: additional parameters for StARS criterion (only for PLNnetwork). stability, a scalar indicating the target stability (= 1 - 2 beta) at which the network is selected. Default is 0.9.

Value

Send back an object with class PLNPCAfit or PLNnetworkfit

Methods (by class)

getBestModel(PLNPCAfamily): Model extraction for PLNPCAfamily
getBestModel(PLNmixturefamily): Model extraction for PLNmixturefamily
getBestModel(Networkfamily): Model extraction for PLNnetworkfamily or ZIPLNnetworkfamily
getBestModel(PLNnetworkfamily): Model extraction for PLNnetworkfamily
getBestModel(ZIPLNnetworkfamily): Model extraction for ZIPLNnetworkfamily

Examples

if (FALSE) { # \dontrun{
data(trichoptera)
trichoptera <- prepare_data(trichoptera$Abundance, trichoptera$Covariate)
myPCA <- PLNPCA(Abundance ~ 1 + offset(log(Offset)), data = trichoptera, ranks = 1:4)
myModel <- getBestModel(myPCA)
} # }