bestBoostingIter        Get the best number of boosting iterations
calcAUC                 Fast computation of the AUC w.r.t. to the ROC
calcBrier               Calculate the Brier score
calcDev                 Calculate the deviance
calcMSE                 Calculate the MSE
calcMis                 Calculate the misclassification rate
calcNCE                 Calculate the normalized cross entropy
calcNRMSE               Calculate the NRMSE
cooling.schedule        Define the cooling schedule for simulated
                        annealing
cv.prune                Optimal pruning via cross-validation
fit4plModel             Fitting 4pL models
fitLinearBoostingModel
                        Linear models based on boosted models
fitLinearLogicModel     Linear models based on logic terms
fitLinearModel          Fitting linear models
get.ideal.penalty       Tuning the LASSO regularization parameter
getDesignMatrix         Design matrix for the set of conjunctions
gxe.test                Gene-environment interaction test
gxe.test.boosting       Gene-environment (GxE) interaction test based
                        on boosted linear models
importance.test.boosting
                        Term importance test based on boosted linear
                        models
logicDT                 Fitting logic decision trees
logicDT.bagging         Fitting bagged logicDT models
logicDT.boosting        Fitting boosted logicDT models
partial.predict         Partial prediction for boosted models
plot.logicDT            Plot a logic decision tree
plot.vim                Plot calculated VIMs
predict.4pl             Prediction for 4pL models
predict.linear          Prediction for linear models
predict.linear.logic    Prediction for 'linear.logic' models
predict.logicDT         Prediction for logicDT models
prune                   Post-pruning using a fixed complexity penalty
prune.path              Pruning path of a logic decision tree
refitTrees              Refit the logic decision trees
splitSNPs               Split biallelic SNPs into binary variables
tree.control            Control parameters for fitting decision trees
vim                     Variable Importance Measures (VIMs)
