AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

History of AFNI updates  

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November 03, 2017 04:01PM
Thank you Rick for your comments/suggestions.
I have a few more questions.

1) You said the voxel level is always the uncorrected p-value, the
corrected p-values apply to the clusters. Does this apply to both FWE (p) and FDR (q)? I am wondering: if I use FDR (q under the slider bar) instead of FWE, do I need to set a limit for cluster size afterwards?
Maybe I am missing something important here?
My understanding is that, if one's already applied an appropriate correction for multiple comparisons (either FWE or FDR) at the voxel level, one should be justified in interpreting that anything shown significant is "significant". There is no need for further corrections. Am I right?

2) I have read the paper: "Cluster-extent based thresholding in fMRI analyses: Pitfalls and recommendations" by Choong-Wan Woo et al. ---------- [www.ncbi.nlm.nih.gov] ------------- in which they state that cluster-extent based thresholding provides low spatial specificity; researchers can only infer that there is signal somewhere within a significant cluster and cannot make inferences about the statistical significance of specific locations within the cluster.
*** With that in mind ... If I want to investigate the evolution of brain activation within some ROI associated with some task over time, is it valid that I measure and look at the change in the number of voxels of some active cluster within that ROI (with cluster-extent correction)?
On the one hand, I think that even I see a bigger cluster (say 500 voxels) at time t2 compared with 400 voxels at a previous time point t1 (same location), I still cannot conclude that there is an effect of (say) 'learning' in that ROI. This is because, as suggested in the paper above, nobody is sure if the additional 100 voxels are actually active. On the other hand, I feel that it is valid if I can observe a consistent trend over multiple time points, e.g. 400 voxels at t1, 500 at t2, 700 at t3, 1000 at t4 etc.
What would you suggest? (I hope the question is clear)

Thank you again for your help.
Duong
Subject Author Posted

p and q values under the Slider bar / alpha in the Cluster table

dlhuynh October 31, 2017 04:31PM

Re: p and q values under the Slider bar / alpha in the Cluster table

rick reynolds November 03, 2017 09:25AM

Re: p and q values under the Slider bar / alpha in the Cluster table

dlhuynh November 03, 2017 04:01PM

Re: p and q values under the Slider bar / alpha in the Cluster table

rick reynolds November 09, 2017 11:03AM