External Email - Use Caution

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 * External Email - Caution *

External Email - Use Caution 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!

[cid:image001.png@01DAE359.BEDC3CF0]

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, Texashttps://labs.utsouthwestern.edu/liu-jiaen-lab

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