adjustment	adjustment
adjustment,interactionResult-method	interactionResult-class
adjustment,regressResult-method	regressResult-class
class:contrastMatrix	contrastMatrix-class
class:designMatrix	designMatrix-class
class:interactionResult	interactionResult-class
class:regressResult	regressResult-class
contrastMatrix	contrastMatrix-class
contrastMatrix-class	contrastMatrix-class
createExpressionSet	createExpressionSet
createGSEAFiles	createGSEAFiles
createIndex	createIndex
createIngenuityFile	createIngenuityFile
designMatrix	designMatrix-class
designMatrix-class	designMatrix-class
eSetExample	eSetExample
exprsExample	exprsExample
geneFilter	geneFilter
getAdjP	getAdjP
getAdjP,interactionResult-method	interactionResult-class
getAdjP,regressResult-method	regressResult-class
getAnnotation	getAnnotation
getAnnotation,interactionResult-method	interactionResult-class
getAnnotation,regressResult-method	regressResult-class
getCompare1	getCompare1
getCompare1,contrastMatrix-method	contrastMatrix-class
getCompare2	getCompare2
getCompare2,contrastMatrix-method	contrastMatrix-class
getContrast	getContrast
getContrast,contrastMatrix-method	contrastMatrix-class
getContrast,interactionResult-method	interactionResult-class
getContrast,regressResult-method	regressResult-class
getCovariates	getCovariates
getCovariates,designMatrix-method	designMatrix-class
getDesign	getDesign
getDesign,designMatrix-method	designMatrix-class
getF	getF
getF,interactionResult-method	interactionResult-class
getF,regressResult-method	regressResult-class
getFC	getFC
getFC,interactionResult-method	interactionResult-class
getFC,regressResult-method	regressResult-class
getFCCutoff	getFCCutoff
getFCCutoff,interactionResult-method	interactionResult-class
getFCCutoff,regressResult-method	regressResult-class
getFileName,interactionResult-method	interactionResult-class
getFileName,regressResult-method	regressResult-class
getFilterMethod	getFilterMethod
getFilterMethod,interactionResult-method	interactionResult-class
getFilterMethod,regressResult-method	regressResult-class
getID	getID
getID,interactionResult-method	interactionResult-class
getID,regressResult-method	regressResult-class
getIndex	getIndex
getIndex,interactionResult-method	interactionResult-class
getIndex,regressResult-method	regressResult-class
getInteraction	getInteraction
getInteraction,contrastMatrix-method	contrastMatrix-class
getIntIndex	getIntIndex
getIntIndex,designMatrix-method	designMatrix-class
getLength	getLength
getLength,interactionResult-method	interactionResult-class
getLevel	getLevel
getLevel,contrastMatrix-method	contrastMatrix-class
getNormalizationMethod	getNormalizationMethod
getNormalizationMethod,interactionResult-method	interactionResult-class
getNormalizationMethod,regressResult-method	regressResult-class
getP	getP
getP,interactionResult-method	interactionResult-class
getP,regressResult-method	regressResult-class
getPCutoff	getPCutoff
getPCutoff,interactionResult-method	interactionResult-class
getPCutoff,regressResult-method	regressResult-class
getTarget	getTarget
getTarget,designMatrix-method	designMatrix-class
hugene10stCONTROL	hugene10stCONTROL
initialize,contrastMatrix-method	contrastMatrix-class
initialize,designMatrix-method	designMatrix-class
interactionResult	interactionResult-class
interactionResult-class	interactionResult-class
mogene10stCONTROL	mogene10stCONTROL
output.cls	output.cls
output.gct	output.gct
output.ing	output.ing
Output2HTML	Output2HTML
Output2HTML,interactionResult-method	interactionResult-class
Output2HTML,regressResult-method	regressResult-class
pDataExample	pDataExample
postInteraction	postInteraction
preProcess3prime	preProcess3prime
preProcessGeneST	preProcessGeneST
qa3prime	qa3prime
qaGeneST	qaGeneST
QC	QC
regress	regress
regressionMethod	regressionMethod
regressionMethod,interactionResult-method	interactionResult-class
regressionMethod,regressResult-method	regressResult-class
regressResult	regressResult-class
regressResult-class	regressResult-class
selectSigGene	selectSigGene
selectSigGene,interactionResult-method	interactionResult-class
selectSigGene,regressResult-method	regressResult-class
selectSigGeneInt	selectSigGeneInt
show,contrastMatrix-method	contrastMatrix-class
show,designMatrix-method	designMatrix-class
show,interactionResult-method	interactionResult-class
show,regressResult-method	regressResult-class
Sort	Sort
Sort,interactionResult-method	interactionResult-class
Sort,regressResult-method	regressResult-class
summary,interactionResult-method	interactionResult-class
summary,regressResult-method	regressResult-class
