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Dear Free Surfer Experts, I am currently working on generating a surface from a volume using the mri_vol2surf tool. The process I am following is as follows:
1. I first create the registration file using bbregister with the following command:
bash bbregister --s "${sub}xx${ses}" --mov "$input_mri" --reg "$output_reg_file" --o "$output_vol_file" --init-header --t1
2. Here, the goal is to generate the .dat registration file.
3. Next, I use this .dat file in mri_vol2surf to generate the surface with the following command:
mri_vol2surf --mov "$input_volume" --reg "$output_reg_file" --hemi lh --projfrac 0.2 --o "$output_surface"
The input MRI for the bbregister command is flash data, and the input volume for mri_vol2surf is a paramagnetic volume that has been registered with the Flash data. However, the surface output generated by mri_vol2surf contains missing surface values (as shown in the figure below. For instance, the grey regions in the surface estimates). I would greatly appreciate any insights into why this might be occurring and how to resolve the issue. Thank you for your time and assistance! Regards,
Shraddha [cid:3033bc8c-0a28-47a6-aa01-2a43edc2a75b]
