That is a label atlas; you cannot run that through FS. You will need a
t1-weighted image to use as input to recon-all to start.
On 11/19/2021 1:59 PM, Flanagan, Shawn D wrote:
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Hello,
I would like to use the Brainnectome atlas for cortical thickness
analysis parcellations. The T1 template volume (nifti file type) is
attached if helpful. I have seen a couple of posts on this, but am not
clear about the process. For example, the response to a similar
comment was to “run recon-all on the AAL anatomical T1w volume
template”. At this point, I do not know what files, transformations,
and/or code modifications are needed. For example, does the
brainnectome template volume need to be preprocessed in any way, does
it need to be saved in the MGH format? If so, how is this done? Does
the process require any other files or subroutines?
In summary, I am wondering if you can “walk me through” the process or
provide a detailed example. Any help would be greatly appreciated!
Thank you for your time.
Best,
Shawn
*---*
*Shawn Flanagan*, Ph.D.
Assistant Professor
University of Pittsburgh
School of Health and Rehabilitation Sciences
Department of Sports Medicine and Nutrition
Neuromuscular Research Laboratory
Warrior Human Performance Research Center
3860 South Water Street
Pittsburgh, PA 15203
sd...@pitt.edu <mailto:sd...@pitt.edu> Email
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