INSPEcT-package	INSPEcT
AIC,INSPEcT-method	AIC-INSPEcT-method
AIC,INSPEcT_model-method	AIC-INSPEcT-method
AIC-INSPEcT-method	AIC-INSPEcT-method
chisqmodel	chisqmodel
chisqmodel,INSPEcT-method	chisqmodel
chisqmodel,INSPEcT_model-method	chisqmodel
chisqtest	chisqtest
chisqtest,INSPEcT-method	chisqtest
chisqtest,INSPEcT_model-method	chisqtest
combine	combine
combine,INSPEcT,INSPEcT-method	combine
compareSteady	compareSteady
compareSteady,INSPEcT,INSPEcT-method	compareSteady
degradation	INSPEcT_diffsteady-class
degradation,INSPEcT_diffsteady-method	INSPEcT_diffsteady-class
dim,INSPEcT-method	dim-INSPEcT-method
Extract	Extract
featureNames,INSPEcT-method	featureNames-INSPEcT-method
featureNames<-,INSPEcT-method	featureNames-INSPEcT-method
geneClass	geneClass
geneClass,INSPEcT-method	geneClass
geneClass,INSPEcT_model-method	geneClass
getModel	getModel
getModel,INSPEcT-method	getModel
getModel<-	getModel
getModel<-,INSPEcT-method	getModel
inHeatmap	inHeatmap
inHeatmap,INSPEcT-method	inHeatmap
INSPEcT	INSPEcT
INSPEcT-class	INSPEcT-class
INSPEcT_diffsteady-class	INSPEcT_diffsteady-class
INSPEcT_model-class	INSPEcT_model-class
labeledSF	labeledSF
labeledSF,INSPEcT-method	labeledSF
llrtests	testingParams
llrtests,INSPEcT-method	testingParams
llrtests,INSPEcT_model-method	testingParams
llrtests<-	testingParams
llrtests<-,INSPEcT-method	testingParams
llrtests<-,INSPEcT_model-method	testingParams
logLik	logLik
logLik,INSPEcT-method	logLik
logLik,INSPEcT_model-method	logLik
makeModelRates	makeModelRates
makeModelRates,INSPEcT-method	makeModelRates
makeModelRates,INSPEcT_model-method	makeModelRates
makeRPKMs	makeRPKMs
makeSimDataset	makeSimDataset
makeSimDataset,INSPEcT_model-method	makeSimDataset
makeSimModel	makeSimModel
makeSimModel,INSPEcT-method	makeSimModel
modelingParams	modelingParams
modelingParams,INSPEcT-method	modelingParams
modelingParams<-	modelingParams
modelingParams<-,INSPEcT-method	modelingParams
modelRates	modelRates
modelRates,INSPEcT-method	modelRates
modelSelection	testingParams
modelSelection,INSPEcT-method	testingParams
modelSelection,INSPEcT_model-method	testingParams
modelSelection<-	testingParams
modelSelection<-,INSPEcT-method	testingParams
modelSelection<-,INSPEcT_model-method	testingParams
mycerIds10	mycerIds10
newINSPEcT	newINSPEcT
nGenes	nGenes
nGenes,INSPEcT-method	nGenes
nTpts	nTpts
nTpts,INSPEcT-method	nTpts
plotGene	plotGene
plotGene,INSPEcT-method	plotGene
plotMA	plotMA
plotMA,INSPEcT_diffsteady-method	plotMA
processing	INSPEcT_diffsteady-class
processing,INSPEcT_diffsteady-method	INSPEcT_diffsteady-class
ratePvals	ratePvals
ratePvals,INSPEcT-method	ratePvals
ratePvals,INSPEcT_model-method	ratePvals
ratesFirstGuess	ratesFirstGuess
ratesFirstGuess,INSPEcT-method	ratesFirstGuess
ratesFirstGuessVar	ratesFirstGuessVar
ratesFirstGuessVar,INSPEcT-method	ratesFirstGuessVar
removeModel	removeModel
removeModel,INSPEcT-method	removeModel
rocCurve	rocCurve
rocCurve,INSPEcT_model,INSPEcT-method	rocCurve
rocCurve,INSPEcT_model,INSPEcT_model-method	rocCurve
rocThresholds	rocThresholds
rocThresholds,INSPEcT_model,INSPEcT-method	rocThresholds
rocThresholds,INSPEcT_model,INSPEcT_model-method	rocThresholds
rpkms	rpkms
sfPlot	sfPlot
sfPlot,INSPEcT-method	sfPlot
show,INSPEcT-method	INSPEcT-class
show,INSPEcT_diffsteady-method	INSPEcT_diffsteady-class
show,INSPEcT_model-method	INSPEcT_model-class
simData1rep	simData1rep
simData3rep	simData3rep
simRates	simRates
split	split
split,INSPEcT,ANY-method	split
synthesis	INSPEcT_diffsteady-class
synthesis,INSPEcT_diffsteady-method	INSPEcT_diffsteady-class
testingParams	testingParams
thresholds	testingParams
thresholds,INSPEcT-method	testingParams
thresholds,INSPEcT_model-method	testingParams
thresholds<-	testingParams
thresholds<-,INSPEcT-method	testingParams
thresholds<-,INSPEcT_model-method	testingParams
totalSF	totalSF
totalSF,INSPEcT-method	totalSF
tpts	tpts
tpts,INSPEcT-method	tpts
UCSC_mm9_genes_exons	UCSC_mm9_genes_exons
UCSC_mm9_genes_introns	UCSC_mm9_genes_introns
viewModelRates	viewModelRates
viewModelRates,INSPEcT-method	viewModelRates
[,INSPEcT,ANY,ANY,ANY-method	Extract
[,INSPEcT_model,ANY,ANY,ANY-method	Extract
