MuscleExample           Subset of Inflammatory Myopathy Dataset to
                        Demonstrate sigPathway
calcTNullFast           Compute Null T Distribution for Each Gene
calcTStatFast           Compute T-Statistics and Corresponding P-Values
calculate.GSEA          Calculate 2-sided statistics based on the GSEA
                        algorithm
calculate.NGSk          Calculate NGSk (NTk-like) statistics with gene
                        label permutation
calculate.NTk           Calculate the NTk and NEk statistics
estimateNumPerm         Compute the Number of Unique Permutations for a
                        Phenotype Vector
getPathwayStatistics    Give the statistics for the probe sets in a
                        pathway
getPathwayStatistics.NGSk
                        Give the statistics for the probe sets in a
                        pathway
importGeneSets          Import gene sets stored in GMT, GMX, GRP, and
                        XML file formats
rankPathways            Summarizes Top Pathways from Pathway Analyses
rankPathways.NGSk       Summarizes Top Pathways from One of the Pathway
                        Analyses
runSigPathway           Perform pathway analysis
selectGeneSets          Select gene sets to be analyzed in pathway
                        analysis
writeSigPathway         Write results of pathway analysis to HTML
                        format
