Metabolite PLS-DA analysis bad p-value

Question

[The]

Hi All,

I'm doing some metabolomics analysis using the web based tool available from http://www.metaboanalyst.ca/

For the PLS-DA analysis my samples good separtion, however the permutation p-value is bad. I'm very new to this kind of analysis, and I'm not sure if I'm making some mistakes. Can permutation values be bad if separation between samples are good? Moreover as the PLS-DA model is bad, can I use the metabolites with VIP values >1.0? Or are these VIP values useless as well?

For bigger sized image please click on the following link:

http://postimg.org/image/s73wsx71h/

Thanks

[Ram]

Hi, the link you posted (http://[url=http://postimg.org/image/s73wsx71h/][img=http://s10.postimg.org/s73wsx71h/PLS_DA_combined.jpg][/url]) was broken. I tried correcting it, but it didn't work out. The underlying image is too small. Could you maybe edit the question correct the link please? Thank you!

[The]

Hello, I've edited the links

[Ram]

Thank you, that should help!

Answer 1

[wenbo]

Hi,do you figure out whether you can use the VIP value in this case?