Hi Brianna,

what kind of acquisition do you have? And in what part of the brain are you having issues? What version are you using? We have a newer skull stripping contributed by Mike Chee and Vitali Zagorodnov in Singapore that you could try - it is better at stripping the dura. Current versions of recon-all know how to run it (Nick can give you the details)

cheers, Bruce

On Thu, 15 Jul 2010, Kolody, Brianna wrote:

Hi,   We're having trouble with the pial boundary line including the pia on a large number of subjects and for greater than 30 slices. It also seems to be included in the segmentation. We tried adjusting watershed parameters to 15, 10, and 5 but it didn't make a difference. In order to delete this selection, I would have to manually edit voxels on every slice, which I fear would introduce even more error in the processing. Does anyone else have this problem and how do you correct it? Do you suggest that I just leave it alone? I attached a screenshot.   Thanks, Brianna

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