Man pages for SubgrpID
Patient Subgroup Identification for Clinical Drug Development

aim.battingThe main AIM-BATTing function
aim.batting.wrapperWrapper function for cv.aim.batting to be passed to kfold.cv.
aim.rule.battingThe main AIM-Rule-BATTing function
aim.rule.batting.wrapperWrapper function for aim.rule.batting, to be passed to...
aim.score.predFind score of cutoff (returned by aim.find.cutoff.pred) for...
aim.score.progFind score of cutoff (returned by aim.find.cutoff.pred) for...
backfit.cox.interactionAn internal function used in cox.interaction
balanced.foldsCreate balanced folds for cross-validation.
batting.predMain predictive BATTing function
batting.progMain prognostic BATTing function
binary.statsA function for binary statistics
combine.conditionInternal function
cox.interactionInteraction Cox AIM
create.training.dataset.indexcreate training/testing dataset indexes.
cv.aim.battingThe function for CV in aim.batting
cv.aim.rule.battingThe function for CV in aim.rule.batting
cv.cox.interactionA function for CV in Cox AIM with interaction.
cv.cox.mainA function for the number of binary rules in the main effect...
cv.foldsCross-validation folds.
cv.lm.interactionA function for CV in linear AIM with interaction.
cv.lm.mainA function for the number of binary rules in the main effect...
cv.logistic.interactionA function for CV in logistic AIM with interaction.
cv.logistic.mainA function for the number of binary rules in the main effect...
cv.pvalp-value calculation for each iteration of cross validation.
cv.seqlr.battingCross Validation for Sequential BATTing
evaluate.cv.resultsCross-validation Performance Evaluation
evaluate.resultsGet statistics for a single set of predictions.
filterFilter function for predictive/prognostic biomarker...
filter.glmnetFlitering using MC glmnet
filter.unicartrpart filtering (only for prognostic case)
filter.univariateUnivariate Filtering
find.pred.statsFind predictive stats from response and prediction vector
find.prog.statsFind prognostic stats from response and prediction vector
get.var.counts.aimGet counts of signature variables from output of...
get.var.counts.seqGet signature variables from output of seqlr.batting.
interaction.plotA function for interaction plot
kfold.cvPerform k-fold cross-validation of a model.
make.arg.listCreate a list of variables corresponding to the arguments of...
one.droppingPerform dropping one time in predictive case.
one.dropping.progPerform dropping one time in prognostic case.
one.pastingPerform pasting one time in predictive case.
one.pasting.progPerform pasting one time in prognostic case.
one.peelingPerform peeling one time in predictive case.
one.peeling.progPerform peeling one time in prognostic case.
permute.rowsRamdomly permute the rows of a matrix.
permute.vectorRandomly permute the entries of a vector.
pred.aimMake predictions for data given prediction rule in...
pred.aim.cvMake predictions for data given prediction rule in...
pred.primPrediction function for PRIM
pred.prim.cvPrediction function for PRIM CV
pred.seqlrPrediction function for Sequential BATTing
pred.seqlr.cvPrediction function for CV Sequential BATTing
prim.cvCross-validation for PRIM
prim.trainThe main PRIM function
prim.train.pred.onceApply PRIM one time on the training data for a fixed value of...
prim.train.prog.onceApply PRIM one time on the training data for a fixed value of...
prim.train.wrapperWrapper function for PRIM CV
pval.calCalculate p-value for treatment in each subgroup in...
pval.cal.progCalculate p-value for treatment in each subgroup in...
query.datainternal function used in seqlr.batting
query.from.conditionAn internal function inside one.pasting.
resampleCreates a permutation of given size.
Sepsis.testSepsis Trial testing dataset
Sepsis.trainSepsis Trial training dataset
seqlr.battingPerform sequential BATTing method.
seqlr.batting.wrapperWrapper function for seqlr.batting, to be passed to kfold.cv.
seqlr.find.cutoff.predFind cutoff for predictive case.
seqlr.find.cutoff.progFind cutoff for prognostic case.
seqlr.score.predCompute score of cutoff for predictive case
seqlr.score.progCompute score of cutoff for prognostic case
SubgrpIDExploratory Subgroup Identification main function
SubgrpID-packagePatient subgroup identification for clinical drug development
summarize.cv.statsCalculate summary statistics from raw statistics returned by...
SubgrpID documentation built on May 29, 2017, 9:38 p.m.