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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rick reynolds
July 22, 2015 04:34PM
Hi Ana,

Just to be sure, I take this to mean that you are
not using afni_proc.py for your processing. Is that
correct?

The -automask option is inappropriate for an errts
dataset, since automask looks for a high-intensity
blob, and the errts dataset has zero mean everywhere.
But a mask is important, because you only want to
estimate the blur within the brain.

My guess is that you are simply not applying an
appropriate mask. The -detrend option is applied
by afni_proc.py, and blur estimates are computed
per run.

What is your exact command?

- rick
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Subject Author Posted

3dFWHMx returns spatial smoothness values that are 50% of the blur applied

Ana Bedacarratz July 22, 2015 04:03PM

Re: 3dFWHMx returns spatial smoothness values that are 50% of the blur applied

rick reynolds July 22, 2015 04:34PM

Re: 3dFWHMx returns spatial smoothness values that are 50% of the blur applied

Ana Bedacarratz July 23, 2015 09:55PM

Re: 3dFWHMx returns spatial smoothness values that are 50% of the blur applied

rick reynolds July 24, 2015 10:18AM