API for bhklab/ToxicoGx
Analysis of Large-Scale Toxico-Genomic Data

Global functions
.Hill	Source code
.ToxicoSet	Man page
.calculateFromRaw	Source code
.checkParamsForErrors	Source code
.checkParamsForMissing	Source code
.checkParamsForMissingTests	Source code
.computeAUCUnderFittedCurve	Source code
.convertTsetMolecularProfilesToSE	Source code
.createtSetEntry	Source code
.eSetToSE	Source code
.getCommonConcentrationRange	Source code
.meshEval	Source code
.onAttach	Source code
.optimizeRegression	Source code
.residual	Source code
.summarizePerturbationNumbers	Source code
.summarizeSensitivityNumbers	Source code
HCC_sig	Man page
TGGATESsmall	Man page
ToxicoSet	Man page Source code
ToxicoSet-accessors	Man page
ToxicoSet-class	Man page
ToxicoSig	Man page Source code
[,ToxicoSet,ANY,ANY,ANY-method	Man page
`drugInfo<-`	Source code
`drugNames<-`	Source code
annotation	Man page
annotation,ToxicoSet-method	Man page
annotation<-	Man page
annotation<-,ToxicoSet,list-method	Man page
availableTSets	Man page Source code
cellInfo	Man page
cellInfo,ToxicoSet-method	Man page
cellInfo<-	Man page
cellInfo<-,ToxicoSet,data.frame-method	Man page
cellName,ToxicoSet-method	Man page
cellNames	Man page
cellNames<-	Man page
cellNames<-,ToxicoSet,list-method	Man page
checkTSetStructure	Man page Source code
columnsAsCharacter	Source code
computeAUC	Man page
computeIC50	Man page Source code
computeICn	Man page Source code
computeLimmaDiffExpr	Man page
computeLimmaDiffExpr,ToxicoSet-method	Man page
curation	Man page
curation,ToxicoSet-method	Man page
curation<-	Man page
curation<-,ToxicoSet,list-method	Man page
datasetType	Man page
datasetType,ToxicoSet-method	Man page
datasetType<-	Man page
datasetType<-,ToxicoSet,character-method	Man page
dateCreated	Man page
dateCreated,ToxicoSet-method	Man page
dateCreated<-	Man page
dateCreated<-,ToxicoSet,character-method	Man page
dateCreated<-,ToxicoSet-method	Man page
dim,ToxicoSet-method	Man page
downloadTSet	Man page Source code
drugGeneResponseCurve	Man page Source code
drugInfo	Man page Source code
drugInfo<-	Man page
drugNames	Man page Source code
drugNames<-	Man page
drugPerturbationSig	Man page Source code
drugTimeResponseCurve	Man page Source code
fNames	Man page
fNames,ToxicoSet,character-method	Man page
fNames<-	Man page
fNames<-,ToxicoSet,character,character-method	Man page
featureInfo	Man page
featureInfo,ToxicoSet-method	Man page
featureInfo<-	Man page
featureInfo<-,ToxicoSet,character,DataFrame-method	Man page
featureInfo<-,ToxicoSet,character,data.frame-method	Man page
geneDrugPerturbation	Man page Source code
geneDrugSensitivity	Source code
logLogisticRegression	Man page Source code
mDataNames	Man page
mDataNames,ToxicoSet-method	Man page
mDataNames<-	Man page
mDataNames<-,ToxicoSet,ANY-method	Man page
mDataNames<-,ToxicoSet-method	Man page
molecularProfiles	Man page
molecularProfiles,ToxicoSet-method	Man page
molecularProfiles<-	Man page
molecularProfiles<-,ToxicoSet,character,character,matrix-method	Man page
molecularProfiles<-,ToxicoSet,character,missing,matrix-method	Man page
molecularProfiles<-,ToxicoSet,missing,missing,MutliAssayExperime	Man page
molecularProfiles<-,ToxicoSet,missing,missing,list-method	Man page
molecularProfilesSlot	Man page
molecularProfilesSlot,ToxicoSet-method	Man page
molecularProfilesSlot<-	Man page
molecularProfilesSlot<-,ToxicoSet,list-method	Man page
molecularProfilesSlot<-,ToxicoSet,list_OR_MAE-method	Man page
molecularProfilesSlot<-ToxicoSet,MultiAssayExperiment-method	Man page
moleculerProfilesSlot,ToxicoSet-method	Man page
name	Man page
name,ToxicoSet-method	Man page
name<-	Man page
name<-,ToxicoSet,character-method	Man page
name<-,ToxicoSet-method	Man page
paramErrorChecker	Source code
paramMissingHandler	Source code
paramMissingHandlerTests	Source code
pertNumber	Man page
pertNumber,ToxicoSet-method	Man page
pertNumber<-	Man page
pertNumber<-,ToxicoSet,array-method	Man page
phenoInfo	Man page
phenoInfo,ToxicoSet,character-method	Man page
phenoInfo<-	Man page
phenoInfo<-,ToxicoSet,character,DataFrame-method	Man page
phenoInfo<-,ToxicoSet,character,data.frame-method	Man page
rankGeneDrugPerturbation	Source code
sampleInfo	Man page
sampleInfo,ToxicoSet-method	Man page
sampleInfo<-	Man page
sampleInfo<-,ToxicoSet,data.frame-method	Man page
sampleName,ToxicoSet-method	Man page
sampleNames	Man page
sampleNames,ToxicoSet-method	Man page
sampleNames<-	Man page
sampleNames<-,ToxicoSet,character-method	Man page
sampleNames<-,ToxicoSet,list-method	Man page
sanitizeInput	Source code
sensNumber	Man page
sensNumber,ToxicoSet-method	Man page
sensNumber<-	Man page
sensNumber<-,ToxicoSet,matrix-method	Man page
sensitivityInfo,ToxicoSet,character-method	Man page
sensitivityInfo,ToxicoSet,missing-method	Man page
sensitivityInfo,ToxicoSet-method	Man page
sensitivityInfo<-,ToxicoSet,data.frame-method	Man page
sensitivityInfo<-,ToxicoSet,missing,data.frame-method	Man page
sensitivityMeasures,ToxicoSet-method	Man page
sensitivityMeasures<-,ToxicoSet,character-method	Man page
sensitivityProfiles,ToxicoSet-method	Man page
sensitivityProfiles<-,ToxicoSet,data.frame-method	Man page
sensitivityRaw,ToxicoSet-method	Man page
sensitivityRaw<-,ToxicoSet,array-method	Man page
sensitivitySlot	Man page
sensitivitySlot<-	Man page
sensitvityInfo<-,ToxicoSet,character,data.frame-method	Man page
show,ToxicoSet-method	Man page
show,ToxicoSig-method	Man page
showSigAnnot	Man page Source code
subsetTo	Man page Source code
summarizeMolecularProfiles	Man page Source code
summarizeSensitivityProfiles	Man page Source code
treamentResponse<-,ToxicoSet,list-method	Man page
treatmentInfo	Man page
treatmentInfo,ToxicoSet-method	Man page
treatmentInfo<-	Man page
treatmentInfo<-,ToxicoSet,data.frame-method	Man page
treatmentNames	Man page
treatmentNames,ToxicoSet-method	Man page
treatmentNames<-	Man page
treatmentNames<-,ToxicoSet,character-method	Man page
treatmentResponse	Man page
treatmentResponse,ToxicoSet-method	Man page
treatmentResponse<-	Man page
treatmentResponse<-,ToxicoSet,LongTable-method	Man page
treatmentResponse<-,ToxicoSet,list_OR_LongTable-method	Man page
updateCellId	Source code
updateDrugId	Source code
updateMaxConc	Source code
updateObject,ToxicoSet-method	Man page