I think that the wm edits should have worked. Can you load the rh.orig.nofix and rh.orig to see if they encompass your edits? If not, then maybe your did not re-run it properly.

On 10/8/2019 12:22 PM, Xiaoqian Yan wrote:

        External Email - Use Caution        

Dear Freesurfer experts,

I am trying to do the segmentation on a patient's T1 image. I did not get error messages running the 'recon-all' (recon-all -i T1.nii -subjid PatientName -all), but the segmentation over the right occipital lobe was imperfect, which caused failures to map the functional activations in this region onto the surface. 

I tried to manually edit the wm.mgz several times, but the output did not change a lot (please see the attached image). The patient had depth EEG electrodes implanted in this region before, so there is a thermal lesion which I thought could have caused the bad segmentation.  Do you have any ideas about what I can do next, or it is possible for you to help me editing the data?

Thanks in advance, best wishes

Xiaoqian

_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
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