Hello Bruce, thank you very much for your fast response and clarifying that potential voxels outside the pial surface do not impact cortical measures.
Best, Yuliya On Sun, Jan 5, 2014 at 3:40 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu>wrote: > Hi Yuliya > > they are included if they are inside of the ?h.pial surface. We don't use > the cortex aseg label as it is in general less accurate than the surfaces. > > cheers > Bruce > > On Sun, 5 Jan 2014, Yuliya Yoncheva wrote: > > Dear FreeSurfer community, >> I am visually inspecting the quality of my recon -all output for a large >> dataset and have a rookie question. >> >> In some instances, when skull stripping ended up leaving some of the >> skull, >> these voxels are associated with a "sgmtn label" (cerebral cortex). In >> other >> instances, although there are a small number of skull voxels that were not >> removed automatically, these voxels do not have an associated "sgmnt >> label" >> available in TkMedit Tools. >> >> Is it the case that only the voxels for which there is a segmentation >> label >> are actually added to the total grey volume estimate? >> >> Thus, voxels, which have not been automatically labelled would not impact >> volume computations? >> >> Thank you kindly for your help. >> >> >> > > The information in this e-mail is intended only for the person to whom it > is > addressed. If you believe this e-mail was sent to you in error and the > e-mail > contains patient information, please contact the Partners Compliance > HelpLine at > http://www.partners.org/complianceline . If the e-mail was sent to you in > error > but does not contain patient information, please contact the sender and > properly > dispose of the e-mail. >
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