TarSeqQC-package	TarSeqQC-package
#	TargetExperiment-statistics
addStatSummSheet	TargetExperiment-buildReport
addStatSummSheet,TargetExperiment-method	TargetExperiment-buildReport
addStatSummSheet-methods	TargetExperiment-buildReport
ampliPanel	ampliPanel
ampliPanel2	ampliPanel2
biasExploration	TargetExperiment-biasExploration
biasExploration,TargetExperiment-method	TargetExperiment-biasExploration
biasExploration-methods	TargetExperiment-biasExploration
buildFeaturePanel	TargetExperiment-buildFeaturePanel
buildFeaturePanel,TargetExperiment-method	TargetExperiment-buildFeaturePanel
buildFeaturePanel-methods	TargetExperiment-buildFeaturePanel
buildReport	TargetExperiment-buildReport
buildReport,TargetExperiment-method	TargetExperiment-buildReport
buildReport-methods	TargetExperiment-buildReport
checkBedFasta	checkBedFasta
checkBedFasta-methods	checkBedFasta
getAttribute	TargetExperiment-getters
getAttribute,TargetExperiment-method	TargetExperiment-getters
getAttribute,TargetExperimentList-method	TargetExperiment-getters
getAttribute-methods	TargetExperiment-getters
getBamFile	TargetExperiment-getters
getBamFile,TargetExperiment-method	TargetExperiment-getters
getBamFile-methods	TargetExperiment-getters
getBedFile	TargetExperiment-getters
getBedFile,TargetExperiment-method	TargetExperiment-getters
getBedFile,TargetExperimentList-method	TargetExperiment-getters
getBedFile-methods	TargetExperiment-getters
getFastaFile	TargetExperiment-getters
getFastaFile,TargetExperiment-method	TargetExperiment-getters
getFastaFile-methods	TargetExperiment-getters
getFeature	TargetExperiment-getters
getFeature,TargetExperiment-method	TargetExperiment-getters
getFeature,TargetExperimentList-method	TargetExperiment-getters
getFeature-methods	TargetExperiment-getters
getFeaturePanel	TargetExperiment-getters
getFeaturePanel,TargetExperiment-method	TargetExperiment-getters
getFeaturePanel-methods	TargetExperiment-getters
getGenePanel	TargetExperiment-getters
getGenePanel,TargetExperiment-method	TargetExperiment-getters
getGenePanel-methods	TargetExperiment-getters
getLowCtsFeatures	TargetExperiment-getters
getLowCtsFeatures,TargetExperiment-method	TargetExperiment-getters
getLowCtsFeatures,TargetExperimentList-method	TargetExperiment-getters
getLowCtsFeatures-methods	TargetExperiment-getters
getOverlappedRegions	TargetExperiment-getters
getOverlappedRegions,TargetExperiment-method	TargetExperiment-getters
getPanels	TargetExperiment-getters
getPanels,TargetExperimentList-method	TargetExperiment-getters
getPileupP	TargetExperiment-getters
getPileupP,TargetExperiment-method	TargetExperiment-getters
getPileupP-methods	TargetExperiment-getters
getRegion	TargetExperiment-getters
getRegion,TargetExperiment-method	TargetExperiment-getters
getRegion,TargetExperimentList-method	TargetExperiment-getters
getRegion-methods	TargetExperiment-getters
getScanBamP	TargetExperiment-getters
getScanBamP,TargetExperiment-method	TargetExperiment-getters
getScanBamP-methods	TargetExperiment-getters
ggplotColours	TargetExperiment-buildReport
ggplotColours,TargetExperiment-method	TargetExperiment-buildReport
ggplotColours,TargetExperimentList-method	TargetExperiment-buildReport
ggplotColours-methods	TargetExperiment-buildReport
initialize	TargetExperiment-initialize
initialize,TargetExperiment-method	TargetExperiment-initialize
initialize,TargetExperimentList-method	TargetExperimentList-initialize
myCounts	myCounts
Object	TargetExperiment-statistics
object	object
pileupCounts	pileupCounts
pileupCounts-methods	pileupCounts
plot	TargetExperiment-plot
plot,TargetExperiment	TargetExperiment-plot
plot,TargetExperimentList	TargetExperiment-plot
plot.TargetExperiment	TargetExperiment-plot
plot.TargetExperimentList	TargetExperiment-plot
plotAttrExpl	TargetExperiment-plotAttrExpl
plotAttrExpl,TargetExperiment-method	TargetExperiment-plotAttrExpl
plotAttrExpl,TargetExperimentList-method	TargetExperiment-plotAttrExpl
plotAttrExpl-methods	TargetExperiment-plotAttrExpl
plotAttrPerform	TargetExperiment-plotAttrPerform
plotAttrPerform,TargetExperiment-method	TargetExperiment-plotAttrPerform
plotAttrPerform-methods	TargetExperiment-plotAttrPerform
plotFeatPerform	TargetExperiment-plotFeatPerform
plotFeatPerform,TargetExperiment-method	TargetExperiment-plotFeatPerform
plotFeatPerform-methods	TargetExperiment-plotFeatPerform
plotFeature	TargetExperiment-plotFeature
plotFeature,TargetExperiment-method	TargetExperiment-plotFeature
plotFeature-methods	TargetExperiment-plotFeature
plotGeneAttrPerFeat	TargetExperiment-plotGeneAttrPerFeat
plotGeneAttrPerFeat,TargetExperiment-method	TargetExperiment-plotGeneAttrPerFeat
plotGeneAttrPerFeat-methods	TargetExperiment-plotGeneAttrPerFeat
plotGlobalAttrExpl	TargetExperimentList-plotGlobalAttrExpl
plotGlobalAttrExpl,TargetExperimentList-method	TargetExperimentList-plotGlobalAttrExpl
plotGlobalAttrExpl-methods	TargetExperimentList-plotGlobalAttrExpl
plotInOutFeatures	plotInOutFeatures
plotInOutFeatures,data.frame-method	plotInOutFeatures
plotInOutFeatures,TargetExperiment-method	plotInOutFeatures
plotMetaDataExpl	TargetExperiment-plotMetaDataExpl
plotMetaDataExpl,TargetExperiment-method	TargetExperiment-plotMetaDataExpl
plotMetaDataExpl-methods	TargetExperiment-plotMetaDataExpl
plotNtdPercentage	TargetExperiment-plotNtdPercentage
plotNtdPercentage,TargetExperiment-method	TargetExperiment-plotNtdPercentage
plotNtdPercentage-methods	TargetExperiment-plotNtdPercentage
plotPoolPerformance	TargetExperimentList-plotPoolPerformance
plotPoolPerformance,TargetExperimentList-method	TargetExperimentList-plotPoolPerformance
plotPoolPerformance-methods	TargetExperimentList-plotPoolPerformance
plotRegion	TargetExperiment-plotRegion
plotRegion,TargetExperiment-method	TargetExperiment-plotRegion
plotRegion-methods	TargetExperiment-plotRegion
print	TargetExperiment-print
print,TargetExperiment-method	TargetExperiment-print
print,TargetExperimentList-method	TargetExperiment-print
readFrequencies	TargetExperiment-readFrequencies
readFrequencies,TargetExperiment-method	TargetExperiment-readFrequencies
readFrequencies-methods	TargetExperiment-readFrequencies
setAttribute<-	TargetExperiment-setters
setAttribute<-,TargetExperiment,character-method	TargetExperiment-setters
setAttribute<--methods	TargetExperiment-setters
setBamFile<-	TargetExperiment-setters
setBamFile<-,TargetExperiment,character-method	TargetExperiment-setters
setBedFile<-	TargetExperiment-setters
setBedFile<-,TargetExperiment,character-method	TargetExperiment-setters
setBedFile<--methods	TargetExperiment-setters
setFastaFile<-	TargetExperiment-setters
setFastaFile<-,TargetExperiment,character-method	TargetExperiment-setters
setFastaFile<--methods	TargetExperiment-setters
setFeature<-	TargetExperiment-setters
setFeature<-,TargetExperiment,character-method	TargetExperiment-setters
setFeature<-,TargetExperimentList,character-method	TargetExperiment-setters
setFeature<--methods	TargetExperiment-setters
setFeaturePanel<-	TargetExperiment-setters
setFeaturePanel<-,TargetExperiment,GRanges-method	TargetExperiment-setters
setFeaturePanel<--methods	TargetExperiment-setters
setGenePanel<-	TargetExperiment-setters
setGenePanel<-,TargetExperiment,GRanges-method	TargetExperiment-setters
setGenePanel<--methods	TargetExperiment-setters
setPileupP<-	TargetExperiment-setters
setPileupP<-,TargetExperiment,PileupParam-method	TargetExperiment-setters
setPileupP<--methods	TargetExperiment-setters
setScanBamP<-	TargetExperiment-setters
setScanBamP<-,TargetExperiment,ScanBamParam-method	TargetExperiment-setters
setScanBamP<--methods	TargetExperiment-setters
setsetBamFile<-	TargetExperiment-setters
setsetBamFile<--methods	TargetExperiment-setters
show	TargetExperiment-show
show,TargetExperiment-method	TargetExperiment-show
show,TargetExperimentList-method	TargetExperiment-show
summarizePanel	TargetExperiment-summarizePanel
summarizePanel,TargetExperiment-method	TargetExperiment-summarizePanel
summarizePanel-methods	TargetExperiment-summarizePanel
summary	TargetExperiment-statistics
summary(ampliPanel)	TargetExperiment-statistics
summary,TargetExperiment-method	TargetExperiment-statistics
summary,TargetExperimentList-method	TargetExperiment-statistics
summaryFeatureLev	TargetExperiment-statistics
summaryFeatureLev,TargetExperiment-method	TargetExperiment-statistics
summaryFeatureLev-methods	TargetExperiment-statistics
summaryGeneLev	TargetExperiment-statistics
summaryGeneLev,TargetExperiment-method	TargetExperiment-statistics
summaryGeneLev-methods	TargetExperiment-statistics
summaryIntervals	TargetExperiment-statistics
summaryIntervals,TargetExperiment-method	TargetExperiment-statistics
summaryIntervals,TargetExperimentList-method	TargetExperiment-statistics
summaryIntervals-methods	TargetExperiment-statistics
TargetExperiment	TargetExperiment-constructor
TargetExperiment-class	TargetExperiment-class
TargetExperiment-methods	TargetExperiment-constructor
TargetExperimentList	TargetExperimentList-constructor
TargetExperimentList-class	TargetExperimentList-class
TargetExperimentList-method	TargetExperimentList-initialize
TargetExperimentList-methods	TargetExperimentList-constructor
TEList	TEList
