Wrapper to run methods for preranked gene set enrichment analysis.
This function provide an interface to two existing functions: fgseaSimple, fgseaMultilevel. By default, the fgseaMultilevel function is used for analysis. For compatibility with the previous implementation you can pass the 'nperm' argument to the function.
fgsea(...)
... |
optional arguments for functions fgseaSimple, fgseaMultilevel |
A table with GSEA results. Each row corresponds to a tested pathway.
data(examplePathways) data(exampleRanks) fgseaRes <- fgsea(examplePathways, exampleRanks, maxSize=500) # Testing only one pathway is implemented in a more efficient manner fgseaRes1 <- fgsea(examplePathways[1], exampleRanks)
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