I’m pretty sure that the Matlab code does not reorient.
Cheers,
Eugenio
--
Juan Eugenio Iglesias
http://www.jeiglesias.com
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Huang, Yujing
<yhuan...@mgh.harvard.edu>
Date: Tuesday, January 23, 2024 at 08:49
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] MRIread and RAS orientation
I’m not sure about the MATLAB codes. When the C codes read in images, no
automatically transformation is done.
I think you can verify it by checking several [c, r, s] locations of both
images loaded with MRIread(). I think c and r are reversed in MATLAB. And the
index starts from 1.
Best,
Yujing
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> On Behalf Of Fotiadis, Panagiotis
Sent: Tuesday, January 23, 2024 1:54 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject: [Freesurfer] MRIread and RAS orientation
External Email - Use Caution
Hello,
I have two nifti files that are both in the same MNI space, the former of which
is saved in LAS orientation while the other in RAS orientation (as showcased by
the “Orientation” field of mri_info). I just wanted to verify: When loading
both on MATLAB using MRIread, both of their volumes are automatically loaded
(or transformed in the case of the first file) in the same RAS orientation,
right (using the vox2ras transformation)?
Thanks in advance!
Best,
Panos
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