Hi Corinna,

You can compute label centroids from a segmentation using mri_segcentroids, and you can map them into any space with the --lta flag.

best

Andrew

From: <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Corinna Bauer <corinnab83@gmail.com>
Reply-To: FS Help <freesurfer@nmr.mgh.harvard.edu>
Date: Friday, February 28, 2020 at 10:48 AM
To: FS Help <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] MNI coordinates from Thalamic nuclei

        External Email - Use Caution        

I have them already ask masks in subject space, but I am doing connectivity analysis on a few of them and would need the MNI coordinates of the centroids for  visualizing those results.

Thanks!

On Fri, Feb 28, 2020 at 10:29 AM Glasser, Matthew <glasserm@wustl.edu> wrote:

        External Email - Use Caution        

Why not represent thalamic nuclei as the actual masks?  Thalamic nuclei are not single points. 

Matt.

From: <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Corinna Bauer <corinnab83@gmail.com>
Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Date: Friday, February 28, 2020 at 9:26 AM
To: Mailing Freesurfer List <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] MNI coordinates from Thalamic nuclei

        External Email - Use Caution        

Hi all,

Is there a way to obtain the MNI coordinates for the thalamic nuclei?

Thanks

Corinna

---

The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail.

_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer