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 14, 2014 02:15PM
Hi Gang,

I have a related question regarding these steps for the PPI.

I preprocessed my data with AFNI_proc.py and plan to run a PPI. However, I don't believe I had the cbucket file saved. I am guessing I need that file to run 3dsynthesize?

But my main question is after running 3dsynthesize, do I subtract the regressors of no interest from the concatenated file (e.g., all_runs.subject+tlrc) or do this from each run separately (e.g., pb04.subject.r01.scale+tlrc)?

If I run it on the concatenated file, do I need to break up the runs for any of the remaining steps? It seems that with the following steps on the website, separating them may not be necessary anymore?

Thank you,

Danny
Subject Author Posted

Getting Started with PPI Pipeline

John April 01, 2014 04:55PM

Re: Getting Started with PPI Pipeline

gang April 02, 2014 11:09AM

Re: Getting Started with PPI Pipeline

Danny April 14, 2014 02:15PM

Re: Getting Started with PPI Pipeline

gang April 14, 2014 04:22PM

Re: Getting Started with PPI Pipeline

Danny April 14, 2014 04:38PM

Re: Getting Started with PPI Pipeline

gang April 14, 2014 05:34PM

Re: Getting Started with PPI Pipeline

Danny April 14, 2014 05:57PM

Re: Getting Started with PPI Pipeline

gang April 14, 2014 06:00PM

Re: Getting Started with PPI Pipeline

Danny April 14, 2014 08:42PM

Re: Getting Started with PPI Pipeline

gang April 15, 2014 10:55AM

Re: Getting Started with PPI Pipeline

Danny April 15, 2014 11:32AM

Re: Getting Started with PPI Pipeline

Danny April 16, 2014 12:30PM

Re: Getting Started with PPI Pipeline

Danny April 16, 2014 01:16PM

Re: Getting Started with PPI Pipeline

gang April 16, 2014 01:42PM

Re: Getting Started with PPI Pipeline

Danny April 16, 2014 01:58PM