Error in OPLS-DA, it doesn't work

[WY70561]

1、Use sample data for analysis：Concentrations Metabolite concentrations of 77 urine samples from cancer patients measured by 1H NMR (Eisner R, et al.). Group 1- cachexic; group 2 - control
2、submit→Proceed
3、Sample normalization：Normalization by sum；Data transformation：None；Data scaling：Auto scaling (mean-centered and divided by the standard deviation of each variable)
4、Normalize
5、Proceed
6、choose“ [Orthogonal Partial Least Squares - Discriminant Analysis (orthoPLS-DA)]”
there was no analysis result, just white page like this:

R Command History for online analysis:

1. mSet<-InitDataObjects(“conc”, “stat”, FALSE)
2. mSet<-Read.TextData(mSet, “Replacing_with_your_file_path”, “rowu”, “disc”);
3. mSet<-SanityCheckData(mSet)
4. mSet<-ReplaceMin(mSet);
5. mSet<-PreparePrenormData(mSet)
6. mSet<-Normalization(mSet, “SumNorm”, “NULL”, “AutoNorm”, ratio=FALSE, ratioNum=20)
7. mSet<-PlotNormSummary(mSet, “norm_0_”, “png”, 72, width=NA)
8. mSet<-PlotSampleNormSummary(mSet, “snorm_0_”, “png”, 72, width=NA)
9. mSet<-OPLSR.Anal(mSet, reg=TRUE)
10. mSet<-PlotOPLS2DScore(mSet, “opls_score2d_0_”, “png”, 72, width=NA, 1,2,0.95,0,0, “na”)
11. mSet<-PlotOPLS.Splot(mSet, “opls_splot_0_”, “all”, “png”, 72, width=NA);
12. mSet<-PlotOPLS.Imp(mSet, “opls_imp_0_”, “png”, 72, width=NA, “vip”, “tscore”, 15,FALSE)
13. mSet<-PlotOPLS.MDL(mSet, “opls_mdl_0_”, “png”, 72, width=NA)

[Louie]

I also encountered the same problem. May I ask how you solved it later？

[Tomiart]

@WY70561

、Use sample data for analysis：Concentrations Metabolite concentrations of 77 urine samples from cancer patients measured by 1H NMR (Eisner R, et al.). Group 1- cachexic; group 2 - control
2、submit→Proceed
3、Sample normalization：Normalization by sum；Data transformation：None；Data scaling：Auto scaling (mean-centered and divided by the standard deviation of each variable)
4、Normalize
5、Proceed
6、choose“ [Orthogonal Partial Least Squares - Discriminant Analysis (orthoPLS-DA)]”
there was no analysis result, just white page like this:

R Command History for online analysis:

1. mSet<-InitDataObjects(“conc”, “stat”, FALSE)
2. mSet<-Read.TextData(mSet, “Replacing_with_your_file_path”, “rowu”, “disc”);
3. mSet<-SanityCheckData(mSet)
4. mSet<-ReplaceMin(mSet);
5. mSet<-PreparePrenormData(mSet)
6. mSet<-Normalization(mSet, “SumNorm”, “NULL”, “AutoNorm”, ratio=FALSE, ratioNum=20)
7. mSet<-PlotNormSummary(mSet, “norm_0_”, “png”, 72, width=NA)
8. mSet<-PlotSampleNormSummary(mSet, “snorm_0_”, “png”, 72, width=NA)
9. mSet<-OPLSR.Anal(mSet, reg=TRUE)
10. mSet<-PlotOPLS2DScore(mSet, “opls_score2d_0_”, “png”, 72, width=NA, 1,2,0.95,0,0, “na”)
11. mSet<-PlotOPLS.Splot(mSet, “opls_splot_0_”, “all”, “png”, 72, width=NA);
12. mSet<-PlotOPLS.Imp(mSet, “opls_imp_0_”, “png”, 72, width=NA, “vip”, “tscore”, 15,FALSE)
13. mSet<-PlotOPLS.MDL(mSet, “opls_mdl_0_”, “png”, 72, width=NA)

Hi all,
We had the same issue, after running orthoPLS-DA, the page turned blank with no results. We solved it by switching to a different network (University network didn’t work for this) and also tried using a VPN, then everything worked fine. It seems to be a network-related issue, maybe due to firewall restrictions or server communication problems, or at least that’s what we read from others who had similar issues. If you’re stuck maybe try another network or device o using a VPN

Hope this helps!

[jeff.xia]

This is an enigma to us - we cannot see any reason why it is not working, nor can we reproduce this from our end