External Email - Use Caution        

Ah yes, sorry:
I'm interesting in comparing cortical thickness, total surface area, and gray matter volume.

And I was wondering about resampling the surfaces to fsaverag,e because I'd like to be able to visualize the inflated surface of each subject (in common space?) with overlays as well.
From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Douglas N. Greve <dgreve@mgh.harvard.edu>
Sent: Tuesday, April 15, 2025 1:51 PM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] clarification - recon-all output data
 
But what are you comparing? Eg, thickness, or the white surface (somehow)?

On 4/15/2025 1:26 PM, Stefanie Bradley wrote:

        External Email - Use Caution        

I'd like to be able to compare different subjects in a common space - would that require resampling to fsaverage?

Thanks,
Stefanie
From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Douglas N. Greve <dgreve@mgh.harvard.edu>
Sent: Tuesday, April 15, 2025 1:14 PM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>; Zollei, Lilla,Ph.D. <LZOLLEI@mgh.harvard.edu>
Subject: Re: [Freesurfer] clarification - recon-all output data
 
I'm not sure I know  what you mean. Why do you want to map them to fsaverage?
I'm cc'ing Lilla about the age question

On 4/14/2025 11:36 AM, Stefanie Bradley wrote:

        External Email - Use Caution        

Thank you! 

To resample a subject's surfaces to a common space (fsaverage), is the best way to use mri_surf2surf? E.g., for ?h.inflate, ?h.pial, etc.

And is using fsaverage appropriate to use for pediatric brains (aged 4-6 years old)?

Thanks,
Stefanie

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Douglas N. Greve <dgreve@mgh.harvard.edu>
Sent: Monday, April 14, 2025 10:12 AM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] clarification - recon-all output data
 
All outputs from recon-all are in native space

On 4/12/2025 5:57 PM, Stefanie Bradley wrote:

        External Email - Use Caution        

Hi there,

I wanted to clarify about the recon-all output: is it in the subject's native space or is everything already mapped to fsaverage space?

For example, is aparc.stats based on the brain in the subject's native space or has the cortical surface already been transformed to fsaverage space, and then stats (ex., cortical thickness) derived after that?

Thanks,
Stefanie

 







_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
MailScanner has detected a possible fraud attemp
 t 
 from "secure-web.cisco.com" claiming to be https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
MailSc
 anner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer