listInputOptions: List Input Options for FORESEE Methods

In JRC-COMBINE/FORESEE: A Tool for the Systematic Comparison of Translational Drug Response Modeling Pipelines

Description

listInputOptions returns possible input arguments in ForeseeTrain (for DrugName, CellResponseType, InputDataTypes, TrainingTissue, TestingTissue, CellResponseTransformation, DuplicationHandling, HomogenizationMethod, GeneFilter, FeaturePreprocessing and BlackBox arguments) and in ForeseeTest (for the Evaluation argument).

Usage

listInputOptions(FunArgument, OBJ)

Arguments

FunArgument	Character string of the input argument (for DrugName, CellResponseType, InputDataTypes, TrainingTissue and TestingTissue) or the function corresponding to the input of ForeseeTrain (CellResponseTransformation, DuplicationHandling, HomogenizationMethod, GeneFilter, FeaturePreprocessing and BlackBox) or ForeseeTest (Evaluation). Check the help of ForeseeTrain and ForeseeTest for more information.
OBJ	A ForeseeTrain or ForeseeTest object that you want to extract options for. Only necessary for when FunArgument is DrugName, CellResponseType, InputDataTypes, TrainingTissue or TestingTissue.

Value

Character vector of all possible inputs

Examples

listInputOptions("CellResponseProcessor")
listInputOptions("DuplicationHandler")
listInputOptions("Homogenizer")
listInputOptions("Validator")
listInputOptions("DrugName", CCLE)[1:10]
listInputOptions("InputDataTypes", GAO)
listInputOptions("CellResponseType", GDSC)
listInputOptions("TrainingTissue", CCLE)
listInputOptions("TestingTissue", GSE33072_erlotinib)

JRC-COMBINE/FORESEE documentation built on Jan. 24, 2020, 1:19 a.m.