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Hi Yujing,

 

Many thanks for your reply! The email didn’t come through to my inbox and I just found it in the online archive.

 

Regarding the coordinate conversion, I had a look at the link but didn’t find MNI 305 related information. It would be very helpful if you could be more specific about the command to run. Thanks!

 

Best wishes,

Vivian

 

From: Yang Yifan <vivian_yyf@outlook.com>
Date: Wednesday, 5 February 2025 at 13:03
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: FreeSurfer coordinates

Hi FreeSurfer Developers,

 

I’m conducting manual ROI labelling on each participant’s inflated surface (after going through the ‘recon-all’ command), but I wasn’t very sure if the coordinates in the corresponding .label files are in MNI 305 space. At the top of the plain text files it’s showing ‘vox2ras=TkReg’.

 

If they are not in MNI 305, could you please explain a bit about what coordinate system is used here and how I could convert that into MNI 305?

 

Thank you very much!

 

Best wishes,

Vivian