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I am running the following command for GSEA analysis in R

gse <- gseGO(geneList=gene_list, 
             ont ="ALL", 
             keyType = "SYMBOL",
             minGSSize = 3, 
             maxGSSize = 800, 
             pvalueCutoff = 0.05, 
             verbose = TRUE, 
             OrgDb = org.Hs.eg.db, 
             pAdjustMethod = "none")

It created an object gse as follows:

GSE

How do I create this manually with my own interested terms?

  • This appears to be an S4 object. A constructor function might be exported by the package. If that's the case, use it. If not, you can try using `new`. You should probably study the S4 system. – Roland Nov 09 '22 at 06:41

0 Answers0