Entry: analysePlate
Aliases: analysePlate
Keywords: manip
Description: Apply a statistic to the data from each well in a plate
URL: ../../../library/prada/html/analysePlate.html

Entry: as.all
Aliases: as.all
Keywords: manip
Description: Coercion without introduction of NAs
URL: ../../../library/prada/html/as.all.html

Entry: barploterrbar
Aliases: barploterrbar
Keywords: hplot
Description: Barplot with error bars.
URL: ../../../library/prada/html/barploterrbar.html

Entry: combineFrames
Aliases: combineFrames
Keywords: 
Description: Combine the cytoFrames within a cytoSet according to some grouping factor
URL: ../../../library/prada/html/combineFrames.html

Entry: csApply
Aliases: csApply
Keywords: manip
Description: Apply a function over the intensities in a cytoSet
URL: ../../../library/prada/html/csApply.html

Entry: cytoFrame-class
Aliases: cytoFrame-class cytoFrame [,cytoFrame,ANY,ANY,ANY-method description,cytoFrame-method description<-,cytoFrame,character-method exprs,cytoFrame-method exprs<-,cytoFrame,matrix-method colnames,cytoFrame-method colnames<-,cytoFrame-method show,cytoFrame-method plot,cytoFrame,missing-method $.cytoFrame gate,cytoFrame-method gate<-,cytoFrame,gate-method gate<-,cytoFrame,gateSet-method drawGate,cytoFrame-method drawGate,cytoFrame-method drawGate,matrix-method appendGates,cytoFrame-method ncol,cytoFrame-method nrow,cytoFrame-method applyGate,cytoFrame,gate-method applyGate,cytoFrame,gateSet-method applyGate,cytoFrame,character-method applyGate,cytoFrame,numeric-method applyGate,cytoFrame,logical-method hist,cytoFrame-method
Keywords: classes
Description: 'cytoFrame': a class for storing observed quantitative properties from a population of cells, most likely from a FACS run or, alternatively, from automated microscopy
URL: ../../../library/prada/html/cytoFrame-class.html

Entry: cytoSet-class
Aliases: cytoSet cytoSet-class [,cytoSet,ANY,missing,missing-method [[,cytoSet,ANY,missing-method [[<-,cytoSet-method show,cytoSet-method length,cytoSet-method pData,cytoSet-method colnames,cytoSet-method colnames<-,cytoSet-method phenoData,cytoSet-method phenoData<-,cytoSet,AnnotatedDataFrame-method plot,cytoSet,missing-method hist,cytoSet-method split,cytoSet,ANY,ANY-method
Keywords: classes
Description: 'cytoSet': a class for storing raw data from a quantitative cell-based assay
URL: ../../../library/prada/html/cytoSet-class.html

Entry: cframe
Aliases: cframe
Keywords: datasets
Description: A sample cytoFrame object - German Cancer Research Center Heidelberg -
URL: ../../../library/prada/html/data-cytoFrame.html

Entry: cset
Aliases: cset
Keywords: datasets
Description: A sample cytoSet object - German Cancer Research Center Heidelberg -
URL: ../../../library/prada/html/data-cytoSet.html

Entry: devDims
Aliases: devDims
Keywords: 
Description: Device Dimensions for plate plots
URL: ../../../library/prada/html/devDims.html

Entry: devRes
Aliases: devRes
Keywords: 
Description: Resolution of current plotting device
URL: ../../../library/prada/html/devRes.html

Entry: fitNorm2
Aliases: fitNorm2
Keywords: 
Description: Fit bivariate normal distribution.
URL: ../../../library/prada/html/fitNorm2.html

Entry: gate-class
Aliases: gate-class gate applyGate,matrix,gate-method appendGates,gateSet-method show,gate-method names,gate-method gate<- drawGate combineGates as.gateSet as.gateSet,gate-method names<-,gate-method lines,gate-method
Keywords: classes
Description: 'gate': a class for subsetting flow-cytometry data by defining regions in two-dimesional projections of the data
URL: ../../../library/prada/html/gate-class.html

Entry: gateSet-class
Aliases: gateSet-class gateSet length,gateSet-method show,gateSet-method names,gateSet-method names<-,gateSet-method applyGate [,gateSet,ANY,missing,missing-method [[,gateSet,ANY,missing-method appendGates appendGates, gateSet_method applyGate,matrix,gateSet-method
Keywords: classes
Description: 'gateSet': a class for subsetting flow-cytometry data by defining multiple regions in two-dimesional projections of the data
URL: ../../../library/prada/html/gateSet-class.html

Entry: getPradaPar
Aliases: setPradaPars getPradaPar
Keywords: manip
Description: Set and query global parameters for functions in the prada package
URL: ../../../library/prada/html/getPradaPar.html

Entry: Internal functions
Aliases: gatePoints
Keywords: internal
Description: Internal functions called by other gating functions
URL: ../../../library/prada/html/new-internal.html

Entry: plotNorm2
Aliases: plotNorm2
Keywords: 
Description: Plot fitted bivariate normal distribution.
URL: ../../../library/prada/html/plotNorm2.html

Entry: plotPlate
Aliases: plotPlate
Keywords: hplot
Description: Plot a well statistic for microtiter plates.
URL: ../../../library/prada/html/plotPlate.html

Entry: readCytoSet
Aliases: readCytoSet
Keywords: IO
Description: Create a cytoSet object from one or more FCS 3.0 files
URL: ../../../library/prada/html/readCytoSet.html

Entry: readFCS
Aliases: readFCS read.fcs
Keywords: IO
Description: Read an FCS file
URL: ../../../library/prada/html/readFCS.html

Entry: readFCSaux
Aliases: readFCSdata readFCStext readFCSheader readFCSgetPar
Keywords: IO
Description: Auxiliary functions for readFCS
URL: ../../../library/prada/html/readFCSaux.html

Entry: removeCensored
Aliases: removeCensored removeCensored,matrix-method removeCensored,data.frame-method removeCensored,cytoFrame-method
Keywords: 
Description: Remove rows that contain censored data
URL: ../../../library/prada/html/removeCensored.html

Entry: progress
Aliases: progress updateProgress killProgress
Keywords: misc
Description: A simple tcltk progress window
URL: ../../../library/prada/html/tcltkProgress.html

Entry: threePanelPlot
Aliases: threePanelPlot
Keywords: hplot
Description: Visualize cytometry data
URL: ../../../library/prada/html/threePanelPlot.html

Entry: thresholds
Aliases: thresholds
Keywords: 
Description: Discretize a two-dimensional data space into quadrants by applying thresholds
URL: ../../../library/prada/html/thresholds.html

Entry: touchFCS
Aliases: touchFCS
Keywords: IO
Description: Check for FCS files
URL: ../../../library/prada/html/touchFCS.html

Entry: vpLocation
Aliases: vpLocation
Keywords: 
Description: Absolute location of current viewport
URL: ../../../library/prada/html/vpLocation.html
