binarizeDrugTargets     Binarize the drug target profile data
binarySet               Search for supersets and subsets
ci                      The combination index extracted from Figure 1B
                        of the Miller study
davis                   Drug-target profile for 72 drugs and 442
                        targets.
dec2bin                 Convert decimal values to binary values
drawGraph               Draw graph function
drugRank                Generate the list of ranked drug combinations
findSameCol             Find the same column from a matrix
findSameSet             Find the same columns from two matrices
floating2               Filter targets
getBinary               Binary set for multiclass data
getBinary1              Weighted binary set for multiclass data
graycode2               Graycode Function
graycode3               Gray code function for matrix indexes
graycodeNames           Names for the predicted sensitivity matrix
grays                   Generate gray code
kiba                    Kiba interaction data
maxcpp                  Search for the max values of 3D matrix in cpp
maxcpp1                 Search for the max values of 2D matrix in cpp
miller_drug_response    The single drug does-response data from the
                        Miller study
miller_drugs            A drug list from Miller study
miller_interaction_binary
                        The binarized drug-target data for the Miller
                        drugs
miller_sensitivity      The scaled drug sensitivity data for the Miller
                        drugs
miller_targets          The curated drug-target data for the Miller
                        drugs
mincpp                  Search for the min values of 3D matrix in cpp
mincpp1                 Search for the min values of 2D matrix in cpp
normalizeSensitivity    Normalize the drug sensitivity data
searchSpace             Generate search space
sffs                    SFFS switch function
sffsBinary              Model selection with sffs for the binary
                        drug-target interaction data
sffsBinary1             Model selection with sffs for the binary
                        drug-target interaction data using two.sided
                        TIMMA model
sffsBinary2             Model selection with filtered binary
                        drug-target interaction data
sffsCategory            Model selection with sffs for the multi-class
                        drug-target interaction data using one.sided
                        TIMMA model
sffsCategory1           Model selection with sffs for the multi-class
                        drug-target interaction data using two.sided
                        TIMMA model
sffsCategoryWeighted    Model selection with sffs for the multi-class
                        drug-target interaction data using one.sided
                        and weighted TIMMA model
sffsCategoryWeighted1   Model selection with sffs for the multi-class
                        drug-target interaction data using two.sided
                        and weighted TIMMA model
sumcpp                  Sum for 3D matrix
sumcpp1                 Sum for 2D matrix in cpp
targetRank              Generate the list of ranked target combinations
timma                   Main function for the timma package
timma-package           Target Inhibition inference using Maximization
                        and Minimization Averaging
timmaBinary             Predicting drug sensitivity with binary
                        drug-target interaction data
timmaBinary1            Predicting drug sensitivity with binary
                        drug-target interaction data using modified
                        maximization and minimization rules
timmaCategory           Predicting drug sensitivity with multi-class
                        drug-target interaction data using one.sided
                        TIMMA model
timmaCategory1          Predicting drug sensitivity with multi-class
                        drug-target interaction data using two.sided
                        TIMMA model
timmaCategoryWeighted   Predicting drug sensitivity with multi-class
                        drug-target interaction data using one.sided
                        and weighted TIMMA model
timmaCategoryWeighted1
                        Predicting drug sensitivity with multi-class
                        drug-target interaction data using two.sided
                        and weighted TIMMA model
timmaModel              Predicting drug sensitivity with binary
                        drug-target interaction data
timmaModel1             Predicting drug sensitivity with binary
                        drug-target interaction data using two.sided
                        TIMMA model
timmaSearchBinary       Prediction in the search space with one.sided
                        TIMMA model
timmaSearchBinary1      Prediction in the search space with two.sided
                        TIMMA model
tyner_interaction_binary
                        A binary drug-target interaction data
tyner_interaction_multiclass
                        A multi-class drug-target interaction data
tyner_sensitivity       The drug sensitivity data
