Hi Alessandro

we don't segment the claustrum at the moment, sorry. It would be hard to do so unless you had reasonably high resolution data. At 1mm you lose a lot of it. And yes, the aparc+aseg.mgz is the Desikan/Killiany and the aparc.a2009s+aseg is the Destrieux atlas

cheers Bruce

Thu, 7 Jan 2016, Alessandro Calamuneri wrote:

Hi freesurfer experts,

I have a few questions on claustra segmentations. I tried to look into archives but did not find an answer to all my points so far..

I have a group of subjects in which I would like to segment claustrum. Looking at lookup table a color is assignied for both left and right claustra; however, after running segmentation, I opened aparc+aseg results and did not find claustra. My questions are:

1. Results of aparc+aseg.mgz are different from aparc.a2009s+aseg ones;

which one does correspond to Desikan-Killiany and which one to Destrieux? I mean, looking at tutorials, aparc.a2009+aseg should correspond to Destrieux, but I could not find aparc.DKTlas40+aseg, thus I am not sure about naming conventions...

2. Do both atlases in principle permit to segment claustrum? In this case,

would missing of claustra be due to poor quality of my data? how could I work on processing pipeline to improve my parcellation and thus obtaining claustra?

3. If claustrum is not automatically segmented, would you please provide

some hints on how to add a new structure based on manual segmentations and include them in segmentation pipeline?

Any suggestion will be appreciated.

Best Regards,

Alessandro