Please see below: 

Originally posted by bordiercecile:

Hi,

I have questions about the FDR methods analysis. I apologize in advance if they are trivials:

1- can I use the fdr with both the t-test and f-test?

Yes. But it is important to use a very large number of permutations. With NBS, 5000 permutations is fine, but FDR may require 1 million or more permutations to infer accurate p-values. 

2- how do I interpret the results? I mean, I launched an analysis with FDR and 500 000 permutations and I got singnificant results. So I looked at the matrice nbs.NBS.con_mat to know the significant edges and usually (when I am using the network based statistics) I am plotting them (with BrainNet) with a weight corresponding to the matrix nbs.NBS.test_stat. However with the FDR method, I am getting value very closed to 0. Should I threshold my results (around 3) after getting the significant edges?

The interepretation is no different between NBS and FDR. I'm not sure what you mean by a value close to zero. No thresholding should be required. 

 

Thanks a lot for your help!

Cecile