Re: [Freesurfer] running mri_glmfit with atlas

[Douglas N. Greve]

Yes, look at the ROI analysis tutorial (eg, asegstats2table or 
aparcstats2table then mri_glmfit with the --table option)


On 8/13/2022 2:22 AM, Hye Min Shin wrote:


External Email - Use Caution

Hello experts,

While going through GroupAnalysis tutorial for freesurfer 
(*MailScanner has detected a possible fraud attempt from 
"secure-web.cisco.com" claiming to be* 
https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis 
), 
I was wondering if there was a way to analyze mri_glmfit by regions 
from an atlas. So instead of looking at vertex-by-vertex or clusters, 
I wanted to look at areas that are statistically significant by 
cortical atlas such as Desikan-Killiany or DK-Tourville atlas.


I understand that mri_glmfit has --label option. Can I just use this 
to tell mri_glmfit to use atlas label file as a mask then?


Thank you in advance for your help.

Best,
Julia Shin

___
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
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 Mass General Brigham 
Compliance HelpLine at https://www.massgeneralbrigham.org/complianceline 
 .
Please note that this e-mail is not secure (encrypted).  If you do not wish to 
continue communication over unencrypted e-mail, please notify the sender of 
this message immediately.  Continuing to send or respond to e-mail after 
receiving this message means you understand and accept this risk and wish to 
continue to communicate over unencrypted e-mail. 

[Freesurfer] running mri_glmfit with atlas

[Hye Min Shin]

External Email - Use Caution

Hello experts,

While going through GroupAnalysis tutorial for freesurfer (
https://secure-web.cisco.com/1vsiSpzodxBizvnBXlCu7-xP4XPwjzJ4w3O_H2Phnc0vsqMpZRz0rEKqiMW5Puygi_PzEgPwghoVAArMbdCwTTAjPfNMV3G8hIql8WKQ0Ny8pZEX2gqmZM6LwVFupm6M7RsvtHspD-NgRplh0jHlENMPbCoxKfZMVniL5U_6DhjlvowuoK1sm1cUIp18NAbLfwfy6-wGmeK0pU63EsF5QNSBZpd7GQFtepIxizy8wAxOlfdXYtvRFkS-nfL3mzdh0tgWM7yIuV6Y_8pA7gIeHHxElhZS16J4PFhZF-gfGwf0HnThoX-JLmNle92oIBgRjWC9WC7ju0G4msIVBlTMdow/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FFsTutorial%2FGroupAnalysis),
 I was
wondering if there was a way to analyze mri_glmfit by regions from an
atlas. So instead of looking at vertex-by-vertex or clusters, I wanted to
look at areas that are statistically significant by cortical atlas such as
Desikan-Killiany or DK-Tourville atlas.

I understand that mri_glmfit has --label option. Can I just use this to
tell mri_glmfit to use atlas label file as a mask then?

Thank you in advance for your help.

Best,
Julia Shin
___
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 Mass General Brigham 
Compliance HelpLine at https://www.massgeneralbrigham.org/complianceline 
 .
Please note that this e-mail is not secure (encrypted).  If you do not wish to 
continue communication over unencrypted e-mail, please notify the sender of 
this message immediately.  Continuing to send or respond to e-mail after 
receiving this message means you understand and accept this risk and wish to 
continue to communicate over unencrypted e-mail.