aim.batting | The main AIM-BATTing function |
aim.batting.wrapper | Wrapper function for cv.aim.batting to be passed to kfold.cv. |
aim.rule.batting | The main AIM-Rule-BATTing function |
aim.rule.batting.wrapper | Wrapper function for aim.rule.batting, to be passed to... |
aim.score.pred | Find score of cutoff (returned by aim.find.cutoff.pred) for... |
aim.score.prog | Find score of cutoff (returned by aim.find.cutoff.pred) for... |
backfit.cox.interaction | An internal function used in cox.interaction |
balanced.folds | Create balanced folds for cross-validation. |
batting.pred | Main predictive BATTing function |
batting.prog | Main prognostic BATTing function |
binary.stats | A function for binary statistics |
combine.condition | Internal function |
cox.interaction | Interaction Cox AIM |
create.training.dataset.index | create training/testing dataset indexes. |
cv.aim.batting | The function for CV in aim.batting |
cv.aim.rule.batting | The function for CV in aim.rule.batting |
cv.cox.interaction | A function for CV in Cox AIM with interaction. |
cv.cox.main | A function for the number of binary rules in the main effect... |
cv.folds | Cross-validation folds. |
cv.lm.interaction | A function for CV in linear AIM with interaction. |
cv.lm.main | A function for the number of binary rules in the main effect... |
cv.logistic.interaction | A function for CV in logistic AIM with interaction. |
cv.logistic.main | A function for the number of binary rules in the main effect... |
cv.pval | p-value calculation for each iteration of cross validation. |
cv.seqlr.batting | Cross Validation for Sequential BATTing |
evaluate.cv.results | Cross-validation Performance Evaluation |
evaluate.results | Get statistics for a single set of predictions. |
filter | Filter function for predictive/prognostic biomarker... |
filter.glmnet | Flitering using MC glmnet |
filter.unicart | rpart filtering (only for prognostic case) |
filter.univariate | Univariate Filtering |
find.pred.stats | Find predictive stats from response and prediction vector |
find.prog.stats | Find prognostic stats from response and prediction vector |
get.var.counts.aim | Get counts of signature variables from output of... |
get.var.counts.seq | Get signature variables from output of seqlr.batting. |
interaction.plot | A function for interaction plot |
kfold.cv | Perform k-fold cross-validation of a model. |
make.arg.list | Create a list of variables corresponding to the arguments of... |
one.dropping | Perform dropping one time in predictive case. |
one.dropping.prog | Perform dropping one time in prognostic case. |
one.pasting | Perform pasting one time in predictive case. |
one.pasting.prog | Perform pasting one time in prognostic case. |
one.peeling | Perform peeling one time in predictive case. |
one.peeling.prog | Perform peeling one time in prognostic case. |
permute.rows | Ramdomly permute the rows of a matrix. |
permute.vector | Randomly permute the entries of a vector. |
pred.aim | Make predictions for data given prediction rule in... |
pred.aim.cv | Make predictions for data given prediction rule in... |
pred.prim | Prediction function for PRIM |
pred.prim.cv | Prediction function for PRIM CV |
pred.seqlr | Prediction function for Sequential BATTing |
pred.seqlr.cv | Prediction function for CV Sequential BATTing |
prim.cv | Cross-validation for PRIM |
prim.train | The main PRIM function |
prim.train.pred.once | Apply PRIM one time on the training data for a fixed value of... |
prim.train.prog.once | Apply PRIM one time on the training data for a fixed value of... |
prim.train.wrapper | Wrapper function for PRIM CV |
pval.cal | Calculate p-value for treatment in each subgroup in... |
pval.cal.prog | Calculate p-value for treatment in each subgroup in... |
query.data | internal function used in seqlr.batting |
query.from.condition | An internal function inside one.pasting. |
resample | Creates a permutation of given size. |
Sepsis.test | Sepsis Trial testing dataset |
Sepsis.train | Sepsis Trial training dataset |
seqlr.batting | Perform sequential BATTing method. |
seqlr.batting.wrapper | Wrapper function for seqlr.batting, to be passed to kfold.cv. |
seqlr.find.cutoff.pred | Find cutoff for predictive case. |
seqlr.find.cutoff.prog | Find cutoff for prognostic case. |
seqlr.score.pred | Compute score of cutoff for predictive case |
seqlr.score.prog | Compute score of cutoff for prognostic case |
SubgrpID | Exploratory Subgroup Identification main function |
SubgrpID-package | Patient subgroup identification for clinical drug development |
summarize.cv.stats | Calculate summary statistics from raw statistics returned by... |
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