Man pages for NanoStringQCPro
Quality metrics and data processing methods for NanoString mRNA gene expression data

addCodesetAnnotationAdd NanoString codeset annotation to an RccSet
addQCFlagsAdd sample QC flags to an rccSet
allSumPlotallSumPlot
assessHousekeepingassessHousekeeping
bdPlotBinding density plot
buildCodesetAnnotationBuild NanoString codeset annotation
checkRccSetCheck an RccSet
colByCovarcolByCovar
colByFuncolByFun
contentNormContent normalization
copyRccSetDeep-copy a NanoString RccSet
countsInBlankSamples_verticalPlotPlot counts in blank samples (vertical orientation)
ctrlsOverviewPlotctrlsOverviewPlot
ctrlsZprimePlotctrlsZprimePlot
cutoffByMMADcutoffByMMAD
cutoffByVarcutoffByVar
dCoVardCoVar
densityPlotdensityPlot
example_rccSetNanoStringQCPro example dataset
flagSamplesCountflagSamplesCount
flagSamplesCtrlflagSamplesCtrl
flagSamplesTechflagSamplesTech
fovPlotFields of view (FOV) plot
geneClusteringGene clustering heatmap
getBackgroundGet background estimates for a NanoString RccSet
getBlankLabelGet the SampleType value that indicates blank samples
getSpikeInInputgetSpikeInInput
iqrPlotiqrPlot
lodAssesslodAssess
lodPlotlodPlot
makeQCReportMake NanoString QC report
myColsmyCols
NanoStringQCProNanoStringQCPro
negCtrlsByLanenegCtrlsByLane
negCtrlsByLane_verticalPlotPlot of negative controls by lane (vertical orientation)
negCtrlsPairsnegCtrlsPairs
negCtrlsPlotnegCtrlsPlot
newRccSetCreate a new RccSet object
nSolverBackgroundnSolver Analysis Software background estimation
nSolverCsv.to.pdata_fdata_adatanSolverCsv.to.pdata_fdata_fdata
panelCorpanelCor
pcaPlotpcaPlot
pdata_fdata_adata.to.rccSetpdata_fdata_adata.to.rccSet
posCtrlNormPositive control normalization
posNormFactPlotposNormFactPlot
posR2PlotposR2Plot
posRatioPlotposRatioPlot
posSlopePlotposSlopePlot
posSumVsAllSumPlotposSumVsAllSumPlot
preprocRccSetPreprocess an RccSet
presAbsCallPresence/absence call
previewPNGCreate a preview of a PNG
rccFiles.to.pdata_fdata_adatarccFiles.to.pdata_fdata_adata
RccSetRccSet constructor methods
RccSet-classRccSet class, derived from ExpressionSet
readCdrDesignDataRead .CSV containing CDR 'Design Data' extract
readRccRead an .RCC file
readRccBatchRead RCC files
readRccCollectorToolExportRead RCC Collector Tool Export
readRlfRead RLF file
sampleClusteringClustering by sample correlation
scatterPairscatterPair
subtractBackgroundSubtract background estimates for a NanoString RccSet
zfacFunzfacFun
NanoStringQCPro documentation built on Nov. 1, 2018, 2:47 a.m.