Enrichment Analysis issue (QS format not detected)

MetaboAnalyst
1

When I analyzed the Enrichment Analysis using RStudio, it show a error as below:

mSet<-SetCurrentMsetLib(mSet, “smpdb_pathway”, 2);
Error in qs::qread(destfile) : QS format not detected

How to solve this problem?

2

Hi Gluck,
Please attach your complete Command history and a reproducible example for us to check the potential issue.
Bests,
Zhiqiang

3

library(MetaboAnalystR)

mSet<-InitDataObjects(“conc”, “msetora”, FALSE)
cmpd.vec<-c(“HMDB0013464”,“HMDB0014800”,“HMDB0014846”,“HMDB0008518”,“HMDB0001049”,“HMDB0010712”,“HMDB0013625”,“HMDB0000365”,
“HMDB0006762”,“HMDB0030282”,“HMDB0012102”,“HMDB0002741”,“HMDB0001416”,“HMDB0041809”,“HMDB0030461”,“HMDB0015224”,
“HMDB0011104”,“HMDB0014423”,“HMDB0015232”,“HMDB0008910”,“HMDB0008845”,“HMDB0004975”,“HMDB0008068”,“HMDB0008902”,
“HMDB0002655”,“HMDB0008937”,“HMDB0008452”,“HMDB0008928”,“HMDB0001993”,“HMDB0000305”,“HMDB0013626”,“HMDB0010402”,
“HMDB0008156”,“HMDB0034095”,“HMDB0014826”,“HMDB0015196”,“HMDB0030381”,“HMDB0037028”,“HMDB0000695”,“HMDB0015254”,
“HMDB0001917”,“HMDB0015182”,“HMDB0014839”,“HMDB0012188”,“HMDB0001054”,“HMDB0059573”,“HMDB0029943”,“HMDB0001248”,
“HMDB0011648”,“HMDB0001354”,“HMDB0032582”,“HMDB0002170”,“HMDB0014813”,“HMDB0034494”,“HMDB0001278”,“HMDB0008553”,
“HMDB0000140”,“HMDB0001175”,“HMDB0001186”,“HMDB0000015”,“HMDB0010395”,“HMDB0010404”,“HMDB0000268”,“HMDB0060480”,
“HMDB0005020”,“HMDB0002172”,“HMDB0002710”,“HMDB0000269”,“HMDB0015090”,“HMDB0000252”,“HMDB0014753”,“HMDB0006482”)
mSet<-Setup.MapData(mSet, cmpd.vec);
mSet<-CrossReferencing(mSet, “hmdb”);
mSet<-CreateMappingResultTable(mSet)
mSet<-SetMetabolomeFilter(mSet, F);
mSet<-SetCurrentMsetLib(mSet, “smpdb_pathway”, 2);

4

Dear Zhiqiang,

RStudio indicated “Error in qs::qread(destfile) : QS format not detected” when “smpdb_pathway” was used in mSet<-SetCurrentMsetLib(mSet, “smpdb_pathway”, 2).
But, if I used “kegg_pathway”, it did not show any error.

Thanks,

Dr. Lin

5

Hi Lin,
Thanks for sharing your code. It is the specific issue for Windows OS. I fixed it. Please re-install MetaboAnalystR and try it.
Bests,
Zhiqiang