BackGating              Sample backgating results
ITN                     Sample flow cytometry data
SimulateMixture         Random Generation from a t Mixture Model with
                        Box-Cox Transformation
addName,curv1Filter,character-method
                        These methods are copied from flowViz to
                        eliminate its dependency on curv1Filter and
                        curv2Filter
autoGate                Automated gating of single populations in 2D
binByRef                Bin a test data set using bins previously
                        created by probability binning a control
                        dataset
calcPBChiSquare         Probability binning metirc for comparing the
                        probability binned datasets
calcPearsonChi          Pearsons chi-square statistic for comparing the
                        probability binned datasets
curv1Filter-class       Class "curv1Filter"
curv2Filter-class       Class "curv2Filter"
curvPeaks               Parse curv1Filter output
density1d               Find most likely separation between positive
                        and negative populations in 1D
ellipse                 convert ellipse from cov/mu to points used to
                        plot priors
fdPar                   The version of fdPar from fda 2.4.0 because the
                        new API changes the output. (specifically
                        res$fd$coefs) and thus breaks the landmarkreg
                        call.
flowClust2Prior         Generate a prior specification based on a
                        flowClust model This function generates a prior
                        specification based on a flowClust fit object
                        It can be passed to a second round of
                        flowClust() with usePrior="yes" The prior could
                        be estimated from a single sample, for example,
                        and then used to speed up the convergence for
                        other samples.
flowStats-package       Statistical methods for flow cytometry data
                        analysis
gate_singlet            Creates a singlet polygon gate using the
                        prediction bands from a robust linear model
gaussNorm               Per-channel normalization based on landmark
                        registration
gpaSet                  Multi-dimensional normalization of flow
                        cytometry data
iProcrustes             Procrustes analysis. Using singular value
                        decomposition (SVD) to determine a linear
                        transformation to align the points in X to the
                        points in a reference matrix Y.
idFeaturesByBackgating
                        (Internal use only) Identify features of flow
                        cytometry data using backgating
landmarkMatrix          Compute and cluster high density regions in 1D
lymphFilter-class       Automated gating of elliptical cell populations
                        in 2D.
mkPrior                 Generate a flowClust prior specification
norm2Filter-class       Class "norm2Filter"
normQA                  Normalization quality assessment
normalize-methods       normalize a GatingSet imported with
                        flowWorkspace, using sequential normalization
                        on the manual gates in the GatingHierarchy.
overton_like            Overton-like subtraction of densities.
plotBins                Plots the probability bins overlaid with
                        flowFrame data
plotPrior               Plots a flowClust prior over some data.
proBin                  Probability binning - a metric for evaluating
                        multivariate differences
quadrantGate            Automated quad gating
rangeGate               Find most likely separation between positive
                        and negative populations in 1D
spillover-flowSet       Compute a spillover matrix from a flowSet
spillover_match-flowSet
                        Construct a 'flowSet' for use with 'spillover'
                        by matching channel names to compensation
                        control filenames
spillover_ng-flowSet    Compute a spillover matrix from a 'flowSet',
                        simplified API
warpSet                 Normalization based on landmark registration
