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, 2022 09:02AM
Hi, Phil-

A couple quick questions here. Did you process this with afni_proc.py, and if so, could you please post the afni_proc.py command here (that will help us understand the subject-level processing choices).

I'm a little confused about what the group-level tests are. Could you unpack those a bit, preferably with the exact 3dttest++ commands you used? You referred to the images as 3dttest++ results, and then state that the images are for 'control' subjects only, so I don't understand what is actually being shown. Also, in glm.PNG and beta_series.PNG, it is difficult to interpret the outputs without knowing what the colorbar and colorbar range are, as well as the threshold. We also typically find it easier to start with either translucent thresholding (so we see more of what is happening throughout the brain) or with lightly or even non-thresholded data (for the same reason).

Having those details will help; my initial thought is that a second round of smoothing at this point would be undesirable. If we understand the commands leading up to this point, then maybe we will see something else happening to resolve.

--pt
Subject Author Posted

smoothing and beta series connectivity Attachments

Phil Burton February 21, 2022 01:46PM

Re: smoothing and beta series connectivity

gang February 23, 2022 10:10PM

Re: smoothing and beta series connectivity

Phil Burton February 24, 2022 08:46AM

Re: smoothing and beta series connectivity

gang February 24, 2022 11:15AM

Re: smoothing and beta series connectivity

Phil Burton February 24, 2022 11:24AM

Re: smoothing and beta series connectivity

Daniel Glen February 24, 2022 02:13PM

Re: smoothing and beta series connectivity

Phil Burton February 24, 2022 02:23PM

Re: smoothing and beta series connectivity

ptaylor February 28, 2022 09:02AM

Re: smoothing and beta series connectivity

Phil Burton February 28, 2022 01:45PM

Re: smoothing and beta series connectivity

ptaylor February 28, 2022 09:09PM

Re: smoothing and beta series connectivity

Phil Burton March 01, 2022 01:34PM