Hi Asim
can you give us a bit more information? Where does the brainmask come
from? I believe we should detect the fact that the brainmask.mgz is
different than the automatically created one (brainmask.auto.mgz) and use
it instead. Note that the recon editing mode in freeview sets erased voxels
to "1" instead of "0" so we can keep track of edits. You might want to do
something similar in whatever stream you are using.
cheers
Bruce
On Fri, 18 Oct 2019, Asim Hassan wrote:
External Email - Use Caution
Good afternoon,
Is there any other way to incorporate a manually edited brain mask into the
recon all process other than through the recon-mode in freeview?
Thanks!
Asim Hassan
Research Technician II
Waugh Lab
Division of Pediatric Neurology
University of Texas Southwestern Medical Center
Phone: 214-645-9259
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