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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ziad
January 23, 2009 08:40AM
Hi Anastasia,

FOV and alignment issues are separate. FOV defines the size of the box, but making the FOV (and resolutions) match would not align the volumes. You can try Daniel's suggestions, and see if they work for you.
Otherwise, you can first make the two volumes have the same FOV and the same resolution using 3dresample with the -master option and nearest neighbor interpolation if you want to minimize smoothing of the volume. Then you can use the script @SUMA_AlignToExperiment which handles aligning volumes of similar contrasts even if their FOVs differ. It has a few options to help it converge if the FOV are quite different or if the volumes are severely out of alignment.

cheers,
ziad
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Subject Author Posted

Cropped FOV registration

Anastasia Ford January 22, 2009 02:08PM

Re: Cropped FOV registration

Daniel Glen January 22, 2009 04:52PM

Re: Cropped FOV registration

ziad January 23, 2009 08:40AM