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Did you use the --to-scanner flag with mris_convert?

 

 

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Jiaen Liu <Jiaen.Liu@utsouthwestern.edu>
Date: Wednesday, July 31, 2024 at 2:56 PM
To: Freesurfer@nmr.mgh.harvard.edu <Freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] misalignment after converting to gifti

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I further tried loading the gifti in Freeview. It aligns well. So the issue is due to workbench, not the conversion.

 

Best

Jiaen

 

From: Jiaen Liu
Sent: Wednesday, July 31, 2024 14:53
To: Freesurfer@nmr.mgh.harvard.edu
Subject: misalignment after converting to gifti

 

I converted surface data in the cortex to surf.gii and loaded the data in connectom workbench. But the cortical curvature aligned well with the T1 image in  Freesurfer doesn’t align well in the workbench. I used mris_convert for the conversion. I’m wondering if I missed certain parameter

Below the left is the workbench display and right is in Freesurfer.

Thanks!

 

 

Best regards,

Jiaen Liu Ph.D.

Assistant Professor

Advanced Imaging Research Center & Radiology

UT Southwestern Medical Center

2201 Inwood Ln

Dallas, TX, USA, 75390

Office: 214.645.2750

Website: Liu (Jiaen) Lab | UT Southwestern, Dallas, Texas

 

 

UT Southwestern

Medical Center

The future of medicine, today.

 

 

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