.computeZIPdelta	dot-computeZIPdelta
.PharmacoSet	PharmacoSet-class
.summarizeSensProfiles	dot-summarizeSensProfiles
amcc	amcc
annotation	PharmacoSet-accessors
annotation,PharmacoSet-method	PharmacoSet-accessors
annotation<-	PharmacoSet-accessors
annotation<-,PharmacoSet,list-method	PharmacoSet-accessors
availablePSets	availablePSets
callingWaterfall	callingWaterfall
CCLEsmall	CCLEsmall
cellInfo	PharmacoSet-accessors
cellInfo,PharmacoSet-method	PharmacoSet-accessors
cellInfo<-	PharmacoSet-accessors
cellInfo<-,PharmacoSet,data.frame-method	PharmacoSet-accessors
cellName,PharmacoSet-method	PharmacoSet-accessors
cellNames	PharmacoSet-accessors
cellNames<-	PharmacoSet-accessors
cellNames<-,PharmacoSet,list-method	PharmacoSet-accessors
checkPsetStructure	checkPsetStructure
CMAPsmall	CMAPsmall
computeABC	computeABC
computeAmax	computeAmax
computeAUC	computeAUC
computeBliss	computeBliss
computeHSA	computeHSA
computeIC50	computeICn
computeICn	computeICn
computeLoewe	computeLoewe
computeSlope	computeSlope
computeZIP	computeZIP
computeZIPdelta	computeZIPdelta
computeZIPdelta,TreatmentResponseExperiment-method	computeZIPdelta-TreatmentResponseExperiment-method
connectivityScore	connectivityScore
cosinePerm	cosinePerm
curation	PharmacoSet-accessors
curation,PharmacoSet-method	PharmacoSet-accessors
curation<-	PharmacoSet-accessors
curation<-,PharmacoSet,list-method	PharmacoSet-accessors
datasetType	PharmacoSet-accessors
datasetType,PharmacoSet-method	PharmacoSet-accessors
datasetType<-	PharmacoSet-accessors
datasetType<-,PharmacoSet,character-method	PharmacoSet-accessors
dateCreated	PharmacoSet-accessors
dateCreated,PharmacoSet-method	PharmacoSet-accessors
dateCreated<-	PharmacoSet-accessors
dateCreated<-,PharmacoSet,character-method	PharmacoSet-accessors
dateCreated<-,PharmacoSet-method	PharmacoSet-accessors
dim,PharmacoSet-method	dim-PharmacoSet-method
downloadPertSig	downloadPertSig
downloadPSet	downloadPSet
drugDoseResponseCurve	drugDoseResponseCurve
drugInfo	PharmacoSet-accessors
drugInfo<-	PharmacoSet-accessors
drugNames	PharmacoSet-accessors
drugNames<-	PharmacoSet-accessors
drugPerturbationSig	drugPerturbationSig
drugSensitivitySig,PharmacoSet-method	drugSensitivitySig-PharmacoSet-method
effectToDose	effectToDose
estimateProjParams	estimateProjParams
featureInfo	PharmacoSet-accessors
featureInfo,PharmacoSet-method	PharmacoSet-accessors
featureInfo<-	PharmacoSet-accessors
featureInfo<-,PharmacoSet,character,data.frame-method	PharmacoSet-accessors
featureInfo<-,PharmacoSet,character,DataFrame-method	PharmacoSet-accessors
filterNoisyCurves	filterNoisyCurves
fitTwowayZIP	fitTwowayZIP
fNames	PharmacoSet-accessors
fNames,PharmacoSet,character-method	PharmacoSet-accessors
fNames<-	PharmacoSet-accessors
fNames<-,PharmacoSet,character,character-method	PharmacoSet-accessors
GDSCsmall	GDSCsmall
geneDrugSensitivity	geneDrugSensitivity
geneDrugSensitivityPBCorr	geneDrugSensitivityPBCorr
geneDrugSensitivityPCorr	geneDrugSensitivityPCorr
gwc	gwc
HDAC_genes	HDAC_genes
hillCurve	hillCurve
intersectPSet	intersectPSet
loeweCI	loeweCI
logLogisticRegression	logLogisticRegression
mcc	mcc
mDataNames	PharmacoSet-accessors
mDataNames,PharmacoSet-method	PharmacoSet-accessors
mDataNames<-	PharmacoSet-accessors
mDataNames<-,PharmacoSet,ANY-method	PharmacoSet-accessors
mDataNames<-,PharmacoSet-method	PharmacoSet-accessors
molecularProfiles	PharmacoSet-accessors
molecularProfiles,PharmacoSet-method	PharmacoSet-accessors
molecularProfiles<-	PharmacoSet-accessors
molecularProfiles<-,PharmacoSet,character,character,matrix-method	PharmacoSet-accessors
molecularProfiles<-,PharmacoSet,character,missing,matrix-method	PharmacoSet-accessors
molecularProfiles<-,PharmacoSet,missing,missing,list-method	PharmacoSet-accessors
molecularProfiles<-,PharmacoSet,missing,missing,MutliAssayExperiment-method	PharmacoSet-accessors
molecularProfilesSlot	PharmacoSet-accessors
molecularProfilesSlot,PharmacoSet-method	PharmacoSet-accessors
molecularProfilesSlot<-	PharmacoSet-accessors
molecularProfilesSlot<-,PharmacoSet,list-method	PharmacoSet-accessors
molecularProfilesSlot<-,PharmacoSet,list_OR_MAE-method	PharmacoSet-accessors
molecularProfilesSlot<-PharmacoSet,MultiAssayExperiment-method	PharmacoSet-accessors
moleculerProfilesSlot,PharmacoSet-method	PharmacoSet-accessors
name	PharmacoSet-accessors
name,PharmacoSet-method	PharmacoSet-accessors
name<-	PharmacoSet-accessors
name<-,PharmacoSet,character-method	PharmacoSet-accessors
name<-,PharmacoSet-method	PharmacoSet-accessors
partialCorQUICKSTOP	partialCorQUICKSTOP
pertNumber	PharmacoSet-accessors
pertNumber,PharmacoSet-method	PharmacoSet-accessors
pertNumber<-	PharmacoSet-accessors
pertNumber<-,PharmacoSet,array-method	PharmacoSet-accessors
PharmacoSet	PharmacoSet
PharmacoSet-accessors	PharmacoSet-accessors
PharmacoSet-class	PharmacoSet-class
PharmacoSet-utils	PharmacoSet-utils
PharmacoSet2	PharmacoSet2
PharmacoSig	PharmacoSig
phenoInfo	PharmacoSet-accessors
phenoInfo,PharmacoSet,character-method	PharmacoSet-accessors
phenoInfo<-	PharmacoSet-accessors
phenoInfo<-,PharmacoSet,character,data.frame-method	PharmacoSet-accessors
phenoInfo<-,PharmacoSet,character,DataFrame-method	PharmacoSet-accessors
plot.PharmacoSig	plot.PharmacoSig
sampleInfo	PharmacoSet-accessors
sampleInfo,PharmacoSet-method	PharmacoSet-accessors
sampleInfo<-	PharmacoSet-accessors
sampleInfo<-,PharmacoSet,data.frame-method	PharmacoSet-accessors
sampleName,PharmacoSet-method	PharmacoSet-accessors
sampleNames	PharmacoSet-accessors
sampleNames,PharmacoSet-method	PharmacoSet-accessors
sampleNames<-	PharmacoSet-accessors
sampleNames<-,PharmacoSet,character-method	PharmacoSet-accessors
sampleNames<-,PharmacoSet,list-method	PharmacoSet-accessors
sensitivityInfo,PharmacoSet,character-method	PharmacoSet-accessors
sensitivityInfo,PharmacoSet,missing-method	PharmacoSet-accessors
sensitivityInfo,PharmacoSet-method	PharmacoSet-accessors
sensitivityInfo<-,PharmacoSet,data.frame-method	PharmacoSet-accessors
sensitivityInfo<-,PharmacoSet,missing,data.frame-method	PharmacoSet-accessors
sensitivityMeasures,PharmacoSet-method	PharmacoSet-accessors
sensitivityMeasures<-,PharmacoSet,character-method	PharmacoSet-accessors
sensitivityProfiles,PharmacoSet-method	PharmacoSet-accessors
sensitivityProfiles<-,PharmacoSet,data.frame-method	PharmacoSet-accessors
sensitivityRaw,PharmacoSet-method	PharmacoSet-accessors
sensitivityRaw<-,PharmacoSet,array-method	PharmacoSet-accessors
sensitivitySlot	PharmacoSet-accessors
sensitivitySlot<-	PharmacoSet-accessors
sensitvityInfo<-,PharmacoSet,character,data.frame-method	PharmacoSet-accessors
sensNumber	PharmacoSet-accessors
sensNumber,PharmacoSet-method	PharmacoSet-accessors
sensNumber<-	PharmacoSet-accessors
sensNumber<-,PharmacoSet,matrix-method	PharmacoSet-accessors
show,PharmacoSet-method	show-PharmacoSet-method
show,PharmacoSig-method	show-PharmacoSig-method
showSigAnnot,PharmacoSig-method	showSigAnnot-PharmacoSig-method
subsetByFeature	PharmacoSet-utils
subsetByFeature,PharmacoSet-method	PharmacoSet-utils
subsetBySample	PharmacoSet-utils
subsetBySample,CoreSet-method	PharmacoSet-utils
subsetBySample,PharmacoSet-method	PharmacoSet-utils
subsetByTreatment	PharmacoSet-utils
subsetByTreatment,PharmacoSet-method	PharmacoSet-utils
subsetTo,PharmacoSet-method	subsetTo-PharmacoSet-method
summarizeMolecularProfiles,PharmacoSet-method	summarizeMolecularProfiles-PharmacoSet-method
summarizeSensitivityProfiles,PharmacoSet-method	summarizeSensitivityProfiles-PharmacoSet-method
treamentResponse<-,PharmacoSet,list-method	PharmacoSet-accessors
treatmentInfo	PharmacoSet-accessors
treatmentInfo,PharmacoSet-method	PharmacoSet-accessors
treatmentInfo<-	PharmacoSet-accessors
treatmentInfo<-,PharmacoSet,data.frame-method	PharmacoSet-accessors
treatmentNames	PharmacoSet-accessors
treatmentNames,PharmacoSet-method	PharmacoSet-accessors
treatmentNames<-	PharmacoSet-accessors
treatmentNames<-,PharmacoSet,character-method	PharmacoSet-accessors
treatmentResponse	PharmacoSet-accessors
treatmentResponse,PharmacoSet-method	PharmacoSet-accessors
treatmentResponse<-	PharmacoSet-accessors
treatmentResponse<-,PharmacoSet,list_OR_LongTable-method	PharmacoSet-accessors
treatmentResponse<-,PharmacoSet,LongTable-method	PharmacoSet-accessors
updateObject,PharmacoSet-method	updateObject-PharmacoSet-method
[,PharmacoSet,ANY,ANY,ANY-method	sub-PharmacoSet-ANY-ANY-ANY-method
