There is no way to view surfaces properly in slices like this because the vertices exist between the slices, so they have to be projected into the slice. This can sometimes create strange images, so before we conclude that they are actually intersecting, click in the area of the intersection and then view in the sag and axial planes and see how they look.
On 8/1/2025 12:20 PM, Mahta Abbaspour wrote:
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Hello FreeSurfer team,
While performing QC on my recon-all output, I spotted an issue in a scan where the pial surface intersects with the white matter surface, causing distortions across several slices in that region. I overlaid the filled.mgz and white matter segmentation, and the area appears to be fully filled in both masks, so I'm not quite sure why the surfaces are inaccurate here. I'd appreciate any insights and the best way to edit this. I've attached a few example slices below for reference.
image.png image.png image.png image.png
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