External Email - Use Caution
Hello, I'm using Freesurfer recon-all to create reconstructions to use with MNE-python for source estimation of SEEG data. My work relies on having correct labeling of segmentation data. For most cases, there has been no trouble but I am having trouble where the cortical parcellation shows up as dots in one hemisphere. Please see image attached. I also noticed that the lh.ribbon.mgz is also 'dotty' (also attached). There is no issue with the right hemisphere. This reconstruction was not manually edited, but only recon-all was used.
I have tried using mris_volmask --label_left_ribbon, setting the argument to various values. That didn't work that great - reducing to 0 basically whites everything out except for the white matter on the ipsilateral hemisphere and anything 1 or more produces the same 'dots'. Interestingly the pial and wm surfaces all look ok. Also, I am not sure if creating the correct ribbon.mgz is going to fix the aparc.a2009+aseg file.
I would really appreciate your advice.
Best regards,
*Hyunchul Lee* MBBS PhD
