Re: [Freesurfer] Gray Matter Intensity at each vertex

[Greve, Douglas N.,Ph.D.]

Use mri_vol2surf, something like
mri_vol2surf --mov norm.mgz --hemi lh --projfrac 0.5 --regheader subject --o 
lh.norm.mgz


On 8/5/2019 11:57 AM, Axelson, Eric D wrote:

External Email - Use Caution
Is there a way to extract the gray matter intensity value at each vertex of a 
surface file (lh/rh.curv/pial/etc)?




Notice: This UI Health Care e-mail (including attachments) is covered by the 
Electronic Communications Privacy Act, 18 U.S.C. 2510-2521 and is intended only 
for the use of the individual or entity to which it is addressed, and may 
contain information that is privileged, confidential, and exempt from 
disclosure under applicable law. If you are not the intended recipient, any 
dissemination, distribution or copying of this communication is strictly 
prohibited. If you have received this communication in error, please notify the 
sender immediately and delete or destroy all copies of the original message and 
attachments thereto. Email sent to or from UI Health Care may be retained as 
required by law or regulation. Thank you.




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

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

[Freesurfer] Gray Matter Intensity at each vertex

[Axelson, Eric D]

External Email - Use Caution

Is there a way to extract the gray matter intensity value at each vertex of a 
surface file (lh/rh.curv/pial/etc)?




Notice: This UI Health Care e-mail (including attachments) is covered by the 
Electronic Communications Privacy Act, 18 U.S.C. 2510-2521 and is intended only 
for the use of the individual or entity to which it is addressed, and may 
contain information that is privileged, confidential, and exempt from 
disclosure under applicable law. If you are not the intended recipient, any 
dissemination, distribution or copying of this communication is strictly 
prohibited. If you have received this communication in error, please notify the 
sender immediately and delete or destroy all copies of the original message and 
attachments thereto. Email sent to or from UI Health Care may be retained as 
required by law or regulation. Thank you.

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

[Freesurfer] Gray matter intensity

[Sabrina Yu]

Hello,



I have been following the instructions in this email thread: 
https://mail.nmr.mgh.harvard.edu/pipermail/freesurfer/2014-April/037240.html.
 And have successfully gotten the wm-gm signal intensity contrast, but now have 
a few questions regarding signal intensity for white matter and gray matter 
intensity.


1) Does the wmparc.stats contain mean white matter intensity values for each 
ROI?

2) Is it possible to extract these same mean intensity values for gray matter? 
There is no gmparc.stats file. We know that it's possible to calculate these 
from the WM/GM ratio from pctsurfcon, but it'd be great if there was a more 
direct way to get this data.


Thank you,

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


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.