[Freesurfer] Extracting the entire brain mask from aparc+aseg.mgz

trying to use mri_extract_label to make brainmasks for them. Is there a way to tell mri_extract_label to put together all labels in one volume? Best regards, Arman Arman Avesta, MD Radiology Resident & PhD Student Yale School of Medicine & Yale Graduate School of Arts and Sciences Email: a

[Freesurfer] extracting brainstem / lentiform nucleus / hippocampus binary masks from aparc+aseg.mgz

from aparc+aseg.mgz files. What command should I use to do that?  Thank you,Arman Arman Avesta, MD Radiology Resident & PhD Student Yale School of Medicine & Yale Graduate School of Arts and Sciences Email: arman.ave...@yale.edu ___ Fr

[Freesurfer] Left-Right labeled brain MRI

External Email - Use Caution Hi, Thank you again for responding to my previous questions!  I'm writing a python class to show MR images, and I need to have one brain MRI volume (e.g. nifti or mgz) in which left and right are labeled in some way.  FSL website used to provide a

Re: [Freesurfer] Left-Right labeled brain MRI

...@nmr.mgh.harvard.edu on behalf of Arman Avesta Sent: Wednesday, March 31, 2021 5:24 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Left-Right labeled brain MRIExternal Email - Use Caution Hi, Thank you again for responding to my previous questions! I'm writing a python

[Freesurfer] FreeSurfer brainmask.mgz: B-1 corrected?

volumes already B1-corrected? (All ADNI subjects that I'm including in my project have B1 acquisition).  If not, is there a simple way to perform B1 correction on brainmask.mgz?  Thank you so much,Arman Arman Avesta, MD Radiology Resident & PhD Student Yale School of Medicine & Yale Graduat