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.NEk | Calculate the NTk and NEk statistics |
calculate.NGSk | Calculate NGSk (NTk-like) statistics with gene label permutation |
calculate.NTk | Calculate the NTk and NEk statistics |
G | Collection of Human Pathways from Gene Ontology, BioCyc, BioCarta, KEGG, and SuperArray |
GenesetsU133a | Collection of Human Pathways from Gene Ontology, BioCyc, BioCarta, KEGG, and SuperArray |
getPathwayStatistics | Give the statistics for the probe sets in a pathway |
getPathwayStatistics.NGSk | Give the statistics for the probe sets in a pathway |
index.DM | Inflammatory Myopathy Dataset |
index.IBM | Inflammatory Myopathy Dataset |
index.NORM | Inflammatory Myopathy Dataset |
MuscleData | Inflammatory Myopathy Dataset |
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 |