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Hi all, Is there a way to obtain the MNI coordinates for the thalamic nuclei?
Thanks
Corinna
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.
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 CautionWhy 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
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.edumailto: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.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Corinna Bauer <corinnab83@gmail.commailto:corinnab83@gmail.com> Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu> Date: Friday, February 28, 2020 at 9:26 AM To: Mailing Freesurfer List <freesurfer@nmr.mgh.harvard.edumailto: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.edumailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
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Corinna Bauer -
Glasser, Matthew -
Hoopes, Andrew