Joint pathway analysis

MetaboAnalyst
1

Hi
I got a gene mapping error from joint pathway analysis. I uploaded the gene list with logFC:
geneListFile<- “sigDE.csv”
geneList<-readChar(geneListFile, file.info(geneListFile)$size)
mSet<-Setup.MapData(mSet, geneList)

then did the gene mapping as below:
mSet<-PerformGeneMapping(mSetObj = mSet, geneIDs =geneList, org = “hsa”, idType = “symbol”);
Error in paste0(“https://www.xialab.ca/resources/sqlite/”, org.code, “_genes.sqlite”) :
object ‘org.code’ not found

Thank you in advance for any suggestions.

2

Before calling the gene mapping function, you may add this line

org.code ← “hsa”