SPADE.FCSToTree         Cluster and build minimum spanning tree from
                        data in FCS files
SPADE.addClusterToFCS   Annotate observations in FCS file with cluster
                        assignment
SPADE.addDensityToFCS   Annotate FCS file with local density of each
                        observation
SPADE.annotateGraph     Add attributes to graph
SPADE.downsampleFCS     Downsample observcations in a FCS file
                        according to density parameter
SPADE.driver            SPADE workflow driver
SPADE.flattenAnnotations
                        Flatten list of annotations to matrix
SPADE.installPlugin     Install CytoSPADE Cytoscape plugin
SPADE.layout.arch       Generate coordinates for plotting graphs
SPADE.markerMedians     Compute marker medians, coefficient of
                        variations and counts for clusters
SPADE.plot.trees        Plot trees with annotated vertices
SPADE.read.FCS          Read an FCS File
SPADE.write.graph       Writing the graph to a file in some format
