Dear FreeSurfer experts,
I ran my group analysis using mri_glmfit and found a number of significant clusters showing cortical thickness differences between 2 groups. I used tksurfer to visualize the results and used FDR to correct for multiple comparisons.
My question is about how do I correctly get the FDR corrected results showing cluster number, size, MNI coordinates etc. as I would if I used QDEC?
I have searched through the archives and have found what looks like the answer, but I'm not convinced that the method I used is correct.
I used
1) mri_glmfit-sim --glmdir lh.group_diff.glmdir --cache 1.3 abs --cwpvalthresh .99
and
2) less lh.group_diff.glmdir/contrast.txt/cache.th13.abs.sig.cluster.summary
However when I visualize the FDR corrected results with tksurfer or freeview I can see a couple of clusters not listed in the summary. Am I missing something?
Thank you so much in advance.
Any help or advice would be greatly appreciated.
Best wishes
Marco