Re: [Freesurfer] question about thalamus

Hi Dorsa

why do you think it is going out too far? What intensity volume are you overlaying it on? Many segmentations miss the lateral parts of the thalamus since they have so much myelin in them

cheers Bruce On Wed, 19 Oct 2016, Dorsa Haji Ghaffari wrote:

Hi, I have done the sub-cortical segmentation in Freesurfer and have extracted the left thalamus, when I put it on top of the original MRI, it seems like it is getting out of the border of thalamus, also it is not smooth. I wanted to ask if anyone knows how to limit the computation only to thalamus, and also make it trace the thalamus more accurately?

Thank you

Dorsa