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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February 28, 2019 07:49AM
Hi

Greetings!

I followed the surface-based analysis in afni_proc.py example 8, during which I mapped all participants volume to standard mesh surface.

Then I conducted the group analysis and got the group statistical results in surface world.

Q1: Trying to rendering the group statistical results in suma, I assume whichever participant standard spec file I use in suma does not matter, since they are all in the standard mesh, right? But which surfvol file should I specify? Every participant has their own SurfVol_Alnd_Exp+orig.

Q2: To report the activation in standard coordinates system, I guess I have to do surf2vol to transform the surface group stat to volume world, but
1)same question, which spec and sv file I should use to transform?
2)and after it's done, what's the recommended pipeline to do tlrc on the volume world group stats to common space (TT_N27 or MNI)?
3) Is it ok to show the surface rendering in standard mesh (suma) before the surf2vol transformation but report the activation coordinates after surf2vol transformation and coregistration to common space?
4) if I tlrc the group stat results to TT_N27, how do I show the surface rendering with afni and suma talking? I was thinking of recon-all TT_N27 anatomical file and @SUMA_AlignToExperiment to align the surfvol to TT_N27, and use this SurfVol_Alnd_Exp and corresponding spec file for suma, is it correct?

Thanks in advance!!

best,
Meng
Subject Author Posted

report surface-based group analysis results in common space

Liu Mengxing February 28, 2019 07:49AM

Re: report surface-based group analysis results in common space

Peter Molfese February 28, 2019 09:52AM

Re: report surface-based group analysis results in common space

Liu Mengxing February 28, 2019 11:12AM

Re: report surface-based group analysis results in common space

Peter Molfese February 28, 2019 02:04PM

Re: report surface-based group analysis results in common space

Liu Mengxing February 28, 2019 03:16PM

Re: report surface-based group analysis results in common space

Daniel Glen March 01, 2019 02:53PM

Re: report surface-based group analysis results in common space

Liu Mengxing March 01, 2019 03:28PM

Re: report surface-based group analysis results in common space

rick reynolds March 01, 2019 03:37PM

Re: report surface-based group analysis results in common space

Liu Mengxing March 01, 2019 04:00PM

Re: report surface-based group analysis results in common space

rick reynolds March 01, 2019 04:25PM