AddFlowFrame            Add a flowFrame to the data variable of the
                        FlowSOM object
AggregateFlowFrames     Aggregate multiple fcs files together
BuildMST                Build Minimal Spanning Tree
BuildSOM                Build a self-organizing map
CountGroups             Calculate differences in cell counts between
                        groups
Dist.MST                Calculate distance matrix using a minimal
                        spanning tree neighbourhood
FMeasure                F measure
FlowSOM                 Run the FlowSOM algorithm
FlowSOMSubset           FlowSOM subset
GetCVs                  Get CV values for all clusters
GetClusters             Get cluster label for all individual cells
GetFlowJoLabels         Process a flowjo workspace file
GetMFIs                 Get MFI values for all clusters
GetMetaclusters         Get metacluster label for all individual cells
Initialize_KWSP         Select k well spread points from X
Initialize_PCA          Create a grid from first 2 PCA components
MapDataToCodes          Assign nearest node to each datapoint
MetaClustering          MetaClustering
MetaclusterCVs          MetaclusterCVs
MetaclusterMFIs         MetaclusterMFIs
NewData                 Map new data to a FlowSOM grid
PlotCenters             Plot cluster centers on a 2D plot
PlotClusters2D          Plot nodes on scatter plot
PlotGroups              Plot differences between groups
PlotLabels              Plot a label in each node
PlotMarker              Plot marker values
PlotNode                Plot star chart
PlotNumbers             Plot the index of each node
PlotOverview2D          Plot metaclusters on scatter plots
PlotPies                Plot comparison with other clustering
PlotSD                  Plot SD
PlotStars               Plot star charts
PlotVariable            Plot a variable for all nodes
Purity                  Calculate mean weighted cluster purity
QueryStarPlot           Query a certain cell type
ReadInput               Read fcs-files or flowframes
SOM                     Build a self-organizing map
SaveClustersToFCS       Write FlowSOM clustering results to the
                        original FCS files
TestOutliers            Test if any cells are too far from their
                        cluster centers
UpdateNodeSize          Update nodesize of FlowSOM object
computeBackgroundColor
                        Internal function for computing background
                        nodes
get_channels            get_channels
get_markers             get_markers
metaClustering_consensus
                        MetaClustering
plotStarLegend          Plot legend for star plot
