I can't tell from those pics what is happening. Does it look like an imaging artifact? You can try putting control points

On 2/26/2024 12:58 PM, lejia2011411409 wrote:

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Hi,
  I used command:  recon-all  -s subject1 -i subject1.nii   -all -sd  /home/t1. I think it is FrreSurfer default method to segementation.

Lejia



At 2024-02-27 01:24:00, "Douglas N. Greve" <dgr...@mgh.harvard.edu> wrote:

    what did you use the do the segmentation? Include command line and
    terminal output

    On 2/26/2024 10:46 AM, lejia2011411409 wrote:

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    Dear freesurfer experts,

    A large amount of subjects got segmentation white matter bad
    (some dark white matter cannot be recognition below 57 slices). 
    Attachment show this problem.  I used 'kvlEMSegment brainmask.mgz
    3 4 4 '  to segment white matter again.  while there reported   
     kvlEMSegment: command not found. Do you have any solutions for
    this? Thanks in advance.

    Best wishes,
    Lejia

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