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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Peter Molfese
January 06, 2014 04:07PM
If you have 300 separate NIFTI Files, my current favorite way to combine all ROIs and visualize them is a trick that Daniel Glen posted a while back. I assume your ROIs are named something like roi_01.nii, roi_02.nii but you can use the wildcards to fit your particular data.

Start by concatenating all of your ROIs together: 
3dTcat -prefix All_ROIs roi_??.nii


Then use argmax in 3dTstat to put them all into the same map. 
3dTstat -prefix VisAllROI ALL_ROIs+tlrc
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Subject Author Posted

Assign Values to Masks

mb3152 January 06, 2014 03:35PM

Re: Assign Values to Masks

Daniel Glen January 06, 2014 03:58PM

Re: Assign Values to Masks

Peter Molfese January 06, 2014 04:07PM

Re: Assign Values to Masks

Peter Molfese January 06, 2014 04:08PM

Re: Assign Values to Masks

Brian Pittman January 06, 2014 04:18PM

Re: Assign Values to Masks

mb3152 January 06, 2014 04:24PM

Re: Assign Values to Masks

Peter Molfese January 06, 2014 04:42PM

Re: Assign Values to Masks

mb3152 January 06, 2014 04:54PM

Re: Assign Values to Masks

Peter Molfese January 06, 2014 05:02PM

Re: Assign Values to Masks

Daniel Glen January 06, 2014 06:33PM

Re: Assign Values to Masks

mb3152 January 06, 2014 07:05PM

Re: Assign Values to Masks

Peter Molfese January 06, 2014 07:25PM

Re: Assign Values to Masks

mb3152 January 06, 2014 08:23PM