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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April 06, 2015 07:52PM
> 1. I am assuming it is appropriate to use preprocessed data (with some
> detrending/filtering/normalization already applied) - is this correct?

Yes, that is appropriate in creating the interaction regressors.

> 2. Is the 3dSynthesize/3dCalc method now recommended in place of 3dDetrend?

Yes I believe the 3dSynthesize route is more preferable.

> 3. To confirm, If 3dSynthesize is preferred, should one still include the
> motion and nuisance regressors in the final 3dDeconvolve step even
> though they are included in 3dSynthesize/3dCalc?

That's correct because the previous step with 3dSynthesize/3dCalc is only for creating interaction regressors. Those confounding effects would still be present in the original data (input for 3dDeconvolve).

> 4. A bit off topic - when conducting timecourse analyses (or simply
> plotting averaged timecourses such as % signal change) is it
> advisable to first use 3dSynthesize/3dCalc? Or is the original
> preprocessed data better?

Yes it is a good idea to remove those confounding effects as much as possible when showing the task-related effects.

Gang
Subject Author Posted

PPI analysis with 3dSynthesize

genevsky April 05, 2015 01:24PM

Re: PPI analysis with 3dSynthesize

gang April 06, 2015 07:52PM