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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Donna Hanlon
May 03, 2004 10:43AM
Hi Jian,

Usually if the anatomy and functional fail to align properly, then the origin of one or both volumes isn't specified correctly. The orientation also could be a problem.

I notice that your anatomy's dimensions happen to match those of a volume spatially normalized to SPM's template bounding box, but the functional's dimensions do not appear to match those of a spatially normalized cubic 4mm volume. If the anatomy was spatially normalized, then its origin probably is 45,63,-36. This is the originator of a cubic 2mm spatially normalized (template bounding box). (Note that SPM calls this voxel 46,64,37, because AFNI voxel 0,0,0 is 1,1,1 in SPM.) You probably want to normalize both anatomy and functional or neither.

Donna Hanlon
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Subject Author Posted

functional and Structure overlay

jian May 02, 2004 12:39PM

Re: functional and Structure overlay

Matthew Belmonte May 03, 2004 12:16AM

Re: functional and Structure overlay

Donna Hanlon May 03, 2004 10:43AM

Re: functional and Structure overlay

Rich Hammett May 03, 2004 01:15PM

Re: functional and Structure overlay

jian May 05, 2004 01:20AM

Re: functional and Structure overlay

Rich Hammett May 05, 2004 12:08PM

Re: functional and Structure overlay

jian May 05, 2004 04:41PM