Error in get("DOLite2EG") : object 'DOLite2EG' not found when re-run enrichDO

[zxy0912]

conduct the DO analysis with DOSE::enrichDO(), problem with loading DOLite dataset.

library(clusterProfiler)
library(org.Hs.eg.db)
library(enrichplot)
library(GOSemSim)

library(DOSE)


runDO <- function(gene_set,  maxGSSize = 500) {
  eg <- bitr(gene_set,
             fromType = "SYMBOL", 
             toType = "ENTREZID", 
             OrgDb = "org.Hs.eg.db")
  
  edo_res <- enrichDO(gene = eg$ENTREZID,
                      # OrgDb =org.Hs.eg.db,
                      ont = "DOLite",
                      pAdjustMethod = "BH",
                      minGSSize = 10,
                      maxGSSize = maxGSSize,
                      pvalueCutoff = 1,
                      qvalueCutoff = 0.2,
                      readable = TRUE)
  return(edo_res)
}

first time is OK

> edo_res <- runDO(genelist)
'select()' returned 1:1 mapping between keys and columns

failed when re-run the function

> edo_res <- runDO(genelist)
'select()' returned 1:1 mapping between keys and columns
Error in get("DOLite2EG") : object 'DOLite2EG' not found

This issue can be fixed after reloading the DOSE package.

> detach("package:DOSE")
> library(DOSE)

[GuangchuangYu]

DOLite was removed in the current version.