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new code for gseKEGG() #19

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rkhetani opened this issue Mar 31, 2021 · 0 comments
Open

new code for gseKEGG() #19

rkhetani opened this issue Mar 31, 2021 · 0 comments

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@rkhetani
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gseaKEGG <- gseKEGG(geneList = foldchanges, # ordered named vector of fold changes (Entrez IDs are the associated names)
                    organism = "hsa", # supported organisms listed below
                    #nPerm = 1000, # default number permutations
                    minGSSize = 20, # minimum gene set size (# genes in set) - change to test more sets or recover sets with fewer # genes
                    pvalueCutoff = 0.05, # padj cutoff value
                    verbose = FALSE,
                    eps = 0)
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