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
February 20, 2013 11:23AM
Assuming that you only want to look at the cerebellum:

You could create a mask, either by hand or using one of the many atlases included in AFNI, see this for more info (http://afni.nimh.nih.gov/pub/dist/edu/latest/afni11_roi/). You could then use this as a mask for your group-level analyses (3dttest++, etc).

If you go the atlas route, you could do something like this: 
whereami -mask_atlas_region FS_Desai_PM:Left-Cerebellum-White-Matter -prefix LCerebellum.nii.gz

You may need to try different Atlases to see which one you "agree with" most. The Desai atlas above is based on Freesurfer segmentations. For a full list, use whereami -show_atlases.
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Subject Author Posted

Cerebellum analysis uding AFNI

pshuk February 20, 2013 11:08AM

Re: Cerebellum analysis uding AFNI

Peter Molfese February 20, 2013 11:23AM

Re: Cerebellum analysis uding AFNI

Daniel Glen February 21, 2013 08:37AM