clipper                 Dissect the pathway to find the path with the
                        greatest association with phenotype.
clipperAllRoots         Dissect the pathway to find the path with the
                        greatest association with phenotype.
cliqueMeanTest          Mean test for cliques.
cliqueMixedTest         Mean test for cliques.
cliquePairedTest        Paired mean test for cliques.
cliqueVarianceTest      Variance test for cliques.
deleteEdge              Remove an edge from 'graphNel' object.
easyClip                Easy clip analysis.
easyLook                Summarize clipper output.
getGraphEntryGenes      Extract all the possible entry point (genes
                        with no entering edges) from graph.
getJunctionTreePaths    Extract the shortest paths along the junction
                        tree of the graph.
nameCliques             Generate clique names from their own elements.
pathQ                   Whole pathway test using qpipf.
plotInCytoscape         Plot a pathway graph in Cytoscape highlighting
                        the relevant path.
prunePaths              Summarize the paths obtained by clipper
                        according to their similarity.
