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Building formula

multivariateFormula()
Formula construction

Computing model

scglr()
Function that fits the scglr model
scglrTheme()
Function that fits the theme model
kCompRand()
Function that fits the mixed-SCGLR model

Cross validation

scglrCrossVal()
Function that fits and selects the number of component by cross-validation.
scglrThemeBackward()
Theme Backward selection

Displaying results

Various S3 methods for displaying information and results from scglr and scglrTheme objects.

pairs(<SCGLR>)
Pairwise scglr plot on components
plot(<SCGLR>)
SCGLR generic plot
print(<SCGLR>)
Print SCGLR object
screeplot(<SCGLR>)
Screeplot of percent of overall X variance captured by component
summary(<SCGLR>) print(<summary.SCGLR>)
Summarizing SCGLR fits
plot(<SCGLRTHM>)
SCGLRTHM generic plot
screeplot(<SCGLRTHM>)
Screeplot of percent of overall X variance captured by component

Miscellaneous

customize
Plot customization
critConvergence()
Auxiliary function for controlling SCGLR fitting
infoCriterion()
Function that calculates cross-validation selection criteria
methodSR()
Regularization criterion types

Sample dataset

genus
Sample dataset of abundance of genera in tropical moist forest
genus2
Sample dataset of abundance of genera in tropical moist forest
dataGen
Sample dataset of abundance of genera in tropical moist forest