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

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gang
February 07, 2020 01:31PM
Rozemarijn,

1) A mask is useful for two reasons: (a) to hide the stuff outside the brain, and (b) provide FDR q-values in the output that would be unnecessarily penalized for the voxels outside the brain.

2) The alpha level would be only available on the cluster report table if you perform the population-level analysis with 3dttest++. In your case with 3dLME, you have already decided the alpha threshold (presumably 0.05) through 3dClustSim. In other words, once you provide the cluster size threshold on the AFNI, all the surviving clusters would have an alpha level of 0.05 or less.

Gang
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3dLME questions

RvK February 07, 2020 09:36AM

Re: 3dLME questions

gang February 07, 2020 01:31PM