.isPolyfunctional       A function to tell wether a gating method is
                        'polyFunctions'
.prior_flowClust1d      Elicits data-driven priors from a flowSet
                        object for a specified channel
.prior_kmeans           Elicits data-driven priors from a flowSet
                        object for specified channels using the K-Means
                        clustering algorithm
alias,gtPopulation-method
                        get population alias
boolMethod-class        A class to represent a boolean gating method.
dims,gtMethod-method    get gating method dimensions
dummyMethod-class       A class to represent a dummy gating method that
                        does nothing but serves as reference to be
                        refered by other population
fcEllipsoidGate         constuctor for 'fcEllipsoidGate'
fcEllipsoidGate-class   a concrete class that reprents the
                        ellipsoidGate generated by flowClust
fcFilter-class          a virtual class that represents the gating
                        result generated by flowClust gating function
fcFilterList            constuctor for 'fcFilterList'
fcFilterList-class      a class that extends 'filterList' class.
fcPolygonGate           constuctor for 'fcPolygonGate'
fcPolygonGate-class     a concrete class that reprents the polygonGate
                        generated by flowClust
fcRectangleGate         constuctor for 'fcRectangleGate'
fcRectangleGate-class   a concrete class that reprents the
                        rectangleGate generated by flowClust
fcTree                  constructor of 'fcTree'
fcTree-class            A class to represent a flowClust tree.
flowClust.1d            Applies flowClust to 1 feature to determine a
                        cutpoint between the minimum cluster and all
                        other clusters.
flowClust.2d            Automatic identification of a population of
                        interest via flowClust based on two markers
gating                  Applies gatingTemplate to one GatingSet.
gating,boolMethod,GatingSet-method
                        apply a 'boolMethod' to the 'GatingSet'
gating,gtMethod,GatingSet-method
                        apply a gtMethod to the 'GatingSet'
gating,polyFunctions,GatingSet-method
                        apply a 'polyFunctions' gating method to the
                        'GatingSet'
gating,refGate,GatingSet-method
                        apply a 'refGate' to the 'GatingSet'
gatingTemplate-class    a class storing the gating method and
                        population information in a graphNEL object
getChildren,gatingTemplate,character-method
                        get children nodes
getGate,fcTree,character-method
                        get gates saved in 'fcTree'
getGate,gatingTemplate,character-method
                        get gating method from the node
getNodes,fcTree-method
                        get nodes from 'fcTree'
getNodes,gatingTemplate-method
                        get nodes from gatingTemplate object
getParent,gatingTemplate,character-method
                        get parent nodes
groupBy,gtMethod-method
                        get the grouping variable for the gating method
gtMethod-class          A class to represent a gating method.
gtPopulation-class      A class to represent a cell population that
                        will be generated by a gating method.
gtSubsets-class         A class representing a group of cell
                        populations.
isCollapse,gtMethod-method
                        get the flag that determines whether gating
                        method is applied on collapsed data
listgtMethods           Print a list of the registered gating methods
mindensity              Determines a cutpoint as the minimum point of a
                        kernel density estimate between two peaks
names,gtMethod-method   get gating method name
names,gtPopulation-method
                        get population name
openCyto                Hierarchical Gating Pipeline for flow cytometry
                        data
parameters,gtMethod-method
                        get parameters of the gating method/function
plot,fcFilterList,ANY-method
                        plot a 'fcFilterList'
plot,fcTree,character-method
                        plot the flowClust gating results
plot,gatingTemplate,missing-method
                        plot the gating scheme
polyFunctions-class     A class to represent a polyFunctions gating
                        method.
posteriors,fcFilter,ANY-method
                        get posteriors from a 'fcFilter' object
ppMethod,gatingTemplate,character-method
                        get preprocessing method from the node
ppMethod-class          A class to represent a preprocessing method.
preprocessing,ppMethod,GatingSet-method
                        apply a ppMethod to the 'GatingSet'
prior_flowClust         Elicits data-driven priors from a flowSet
                        object for specified channels
priors,fcFilter,ANY-method
                        get priors from a 'fcFilter' object
quadGate.seq            sequential quadrant gating function
quadGate.tmix           quadGate based on flowClust::tmixFiler
refGate-class           A class to represent a reference gating method.
registerPlugins         Register a gating or preprocessing function
                        with OpenCyto
show,boolMethod-method
                        show method for boolMethod
show,fcFilter-method    show method for fcFilter
show,gatingTemplate-method
                        show method for gatingTemplate
show,gtMethod-method    show method for gtMethod
tailgate                Gates the tail of a density using the
                        derivative of a kernel density estimate
templateGen             generate a partially complete csv template from
                        the existing gating hierarchy
