Microbiome perf.plsda error

Bugs
1

Hi
Analyzing microbiome data.
Proceed with tss + clr and an error occurred during perf.plsda.
The otu table had 101 bacteria left after prefiltering.error1

I wonder what the problem is. Thank you.

2

Hi Seung, could you reinstall your mixOmics version from bioconductor or gitHub? https://github.com/mixOmicsTeam/mixOmics
we have fixed that bug before. If that does not work out let us know!

3

Hi
I tried as you told me, but it didn’t solve the problem. Did I do something wrong?

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캡처111.PNG922×203 3.81 KB

4

Hi Seung,
Can you send us your RData object (with the data) at mixomics[at]math.univ-toulouse.fr and we will have a better look early next week. Your data will remain confidential but this is for potential debugging!

5

Hi Seung,

You can run the following code in the analysis environment to save the data:

save(otu.TSS, Y, file = "perfBugData.RData")

And then email the perfBugData.RData object it to us.

6

Is your email address “mixomics [at] math.univ-toulouse.fr” correct? I get an error

7

Have you replaced [at] with @? It starts with <mixOmics@math…>. We do not post the direct email on public forums to avoid spams.