Can you include an image with and without the surfaces? Make sure to include slices where you think the white surface extends too far.
On 2/28/2024 9:13 AM, Luisa Klahn wrote:
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Dear Douglas, Please find the nu.mgz screenshot attached. Best, Luisa
*Von:* Luisa Klahn luisa.klahn@gu.se *Gesendet:* Montag, 26. Februar 2024 08:53 *An:* dgreve@mgh.harvard.edu dgreve@mgh.harvard.edu *Betreff:* Re: [Freesurfer] Freesurfer white matter overestimated Dear Douglas, Please find attached the pictures for the following issue: I am processing structural data from a 3T scanner using Freesurfer version 7.3.2. For some subjects, the grey matter looks very thin, and the white matter looks overestimated. I'll attach screenshots of the brainmask, wm mask, and T1 including wm and pial surface lines. I have tried to set control points into the wm but this did not change the results. Does anyone have an idea? Would it be possible to change the intensity settings in the recon-all command?
Thanks for helping! Best, Luisa