Hi Sanjeev

if you label that area "lesion" (left or right) in the aseg.mgz then run -autorecon2-wm -autorecon3 I think it should work. Note that drawing in large regions like that can be very difficult

cheers Bruce

On Sat, 22 Jul 2017, Sanjeev Nara wrote:

Hi Freesurfer experts,

I am using recon -all for parcellating the MRI dataset into different brain regions. But the freesurfer removes the area's having tumour and creates a blank hole there. Is it possible to retain the Tumour areas. My goal is to create a forward model using MRI data. I have attached picture of one subject and highlighted the missing areas.

Any suggestion and solution should be highly appreciated.

Best regards Sanjeev

Sanjeev Nara Predoctoral Researcher BCBL www.bcbl.eu

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