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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
what did you use the do the segmentation? Include command line and terminal output
On 2/26/2024 10:46 AM, lejia2011411409 wrote:
External Email - Use Caution
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
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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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" dgreve@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:
External Email - Use Caution
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
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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:
External Email - Use Caution
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" dgreve@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:External Email - Use Caution 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 _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu *MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be* https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
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Douglas N. Greve -
lejia2011411409