Hi Nilab

Can you send us an example? Usually you can fix this using expert options to constrain the range of intensities that white matter is allowed to take

Cheers

Bruce

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> On Behalf Of Nilab Nasrullah
Sent: Thursday, November 18, 2021 8:01 AM
To: freesurfer@nmr.mgh.harvard.edu
Cc: greve@nmr.mgh.harvard.edu
Subject: [Freesurfer] Help

        External Email - Use Caution        

Hi, 

I am editing about 120 subjects for a research project. In some reconstructions, the grey matter boundary is not recognised, thus Freesurfer classifies it as white matter. I have tried to remove additional pial surface in the area and it gets a bit better. I have also tried to erase the wm that is classified as gm but the results don't change. Using control points is useless since the white matter is classified correct. Is there any way I can edit the subject to get better boundaries for the grey matter? 

Thank you for your help in advance.

//Nilab Nasrullah 

När du skickar e-post till Karolinska Institutet (KI) innebär detta att KI kommer att behandla dina personuppgifter. Här finns information om hur KI behandlar personuppgifter.

Sending email to Karolinska Institutet (KI) will result in KI processing your personal data. You can read more about KI’s processing of personal data here.