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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rick reynolds
September 07, 2018 09:34AM
Hi Peng Ren,

Use 3dresample to alter the orientation when the current orientation is accurate, but not what you want (i.e. the views look correct when shown by the afni GUI). If the orientation is NOT correct (i.e. the views do not look correct in the afni GUI), then use 3drefit to adjust them.

The former leaves the brain in the same location in space, but changes it on disk. The latter alters the location of the data in space, e.g. because it has the anterior brain pointing left, not anterior, one would want to change the definition of where anterior is.

Which position are you in? When viewing the brains in the GUI, do they look correct or not?

- rick
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Subject Author Posted

The confusing output of orientation from 3dinfo

Peng Ren August 29, 2018 10:13PM

Re: The confusing output of orientation from 3dinfo

ptaylor August 29, 2018 10:43PM

Re: The confusing output of orientation from 3dinfo

Peng Ren September 07, 2018 05:44AM

Re: The confusing output of orientation from 3dinfo

rick reynolds September 07, 2018 09:34AM

Re: The confusing output of orientation from 3dinfo

Peng Ren September 13, 2018 11:14PM