Hi Rysia,
I would look at wm.mgz loaded as auxiliary volume and switch to main volume frequently to see, whether you have anything in wm.mgz, which needs to be fixed. There is a tutorial on fixing wm.mgz on the followning web-page:
http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/WhiteMatterEdits
I found very useful to go through the recommended workflow as well:
http://surfer.nmr.mgh.harvard.edu/fswiki/RecommendedReconstruction
I hope this helps you a bit.
Best,
Martin
On Wednesday 12 November 2008 13:42:08 Burmicz, Ryzarda wrote:
Hello there,
We have a subject processed using recon-all that possesses a dimple in the region of the left lateral ventricle. We would like your opinion as to whether or not it requires fixing and how - we are not sure how to go about it (i.e. if it requires a wm.mgz fill how much of it should be filled? It is a tricky subject in that it is quite an asymmetrical brain). This dimple will surely impact upon the mean cortical thickness, a metric which we are interested in using, and therefore we would prefer to fix it if possible.
The dimple is approx at talairach -22.0 -40.5 11.8
I attach some screen shots from tksurfer and tkmedit, although I think it might be best seen from different orientations so let me know if I should upload the subject.
Many thanks,
Rysia