External Email - Use Caution        

Can I send three images so that you could debug? It is not seeming to work
From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Fischl, Bruce <BFISCHL@mgh.harvard.edu>
Sent: Thursday, May 5, 2022 9:08:47 AM
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: [External] Re: [Freesurfer] Reversing mri_convert
 

If you have 2 volumes that share an RAS coordinate system but have different voxel geometry you can use the -rl (“reslice like”) option:

 

mri_convert -rl template.mgz vol_to_convert.nii vol_like_template.mgz

 

cheers

Bruce

 

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> On Behalf Of Zeng, Victor (BIDMC - Keshavan - Psychiatry)
Sent: Thursday, May 5, 2022 4:09 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject: [Freesurfer] Reversing mri_convert

 

        External Email - Use Caution        

Hi,

 

I convert orig.mgz -> T1.nii using mri_convert orig.mgz T1.nii 

 

I now have something registered to the T1.nii and would like to move it back to Freesurfer space. How would you go about doing that? I am assuming I would do the inverse of the mri_convert, but I can't seem to find the option to write the matrix. 

 

Victor Zeng

Beth Israel Deaconess Medical Center

Keshavan Lab

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