Hi all,

I have done segmentation with Freesurfer but when I create a mask for the left thalamus and import it to CAD software it doesn't seem to be at the right coordinates. This may be due to the change in the mask volume(256x256x256) from the original MRI volume(512x512x288). I did re-slice the mask to get the original volume but it gives me an additional piece of cube at the bottom of the image. Does anyone know how to get the authentic coordinates for the mask?

Thank you

Dorsa