Hard to say from those images. In the 2nd, the surface is no where near
where it should be -- it looks like it is misregistered with respect to
the brain (that not an intensity problem). What is your freeview command
to view the images?
On 12/23/2024 8:17 AM, Tommaso Mariani wrote:
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Dear authors,
I'm trying to reconstruct a model of a brain from an MRI, and after
completion of recon-all (without any errors) the results are truly poor.
By looking through your tutorials I am quite confident to say that the
problem is either one of intensity normalisation or of white matter
segmentation (possibly, both), as you can see in the images attached.
My first attempt is to insert some control points, though I wonder if
I might need instead to fix the segmentation with the brush tool.
Could it be possible to receive some feedback about this issue?
Another issue regards the freeview software, as whenever I move with
the arrows from a slice to another the loaded surfaces suddenly
disappear and won't reappear unless I delete and reopen them, and it
makes it really hard to insert control points if I can't see the
surfaces' outlines.
Also, I was wondering if the computational cost of the autorecon2-cp
is dependent significantly on the number of control points.
The pictures shows the lh.white, rh.white files over the T1.mgz file
and the wm.mgz and control.dat files over the brain mask.mgz file.
Thanks in advance for your help,
Tommaso Mariani
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