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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wmckinney
November 21, 2019 12:48PM
Hi all,

I had a quick question on the afni_proc.py alignment options. I work with some projects which align to the first TR and some which align to the minimum outlier. If the first TR is censored due to motion, would aligning to the first TR align to this later censored TR or would it go ahead and align to the first "non-censored" TR from later in the run? I'm assuming that it is aligning to a TR that is later censored during 3dDeconvolve since alignment occurs first but I wanted to make sure this was the case and that I'm not missing something. If so, I'll be editing my scripts to align to the minimum outlier as that sounds like the current recommendation.

Best,
Walker
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Subject Author Posted

Aligning to minimum outlier vs first TR

wmckinney November 21, 2019 12:48PM

Re: Aligning to minimum outlier vs first TR

rick reynolds November 21, 2019 07:43PM

Re: Aligning to minimum outlier vs first TR

wmckinney November 29, 2019 06:32PM