Hi Jonathan
yes, checkout our wiki which lists our upload site. Tar and gzip the subject and put it at: https://gate.nmr.mgh.harvard.edu/filedrop2/
Bruce
On Fri, 15 Nov 2013, Jonathan DuBois wrote:
Hi Bruce, Thanks for getting back to me. Unfortunately, we don't have a FLAIR/T2 for this subject. In some places the cortex is thicker than 8mm. I attached a couple screenshots. Is there somewhere specific that I can upload the file?
Best, Jonathan
Inline image 4 Inline image 3
On Fri, Nov 15, 2013 at 9:16 AM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote: Hi Jonathan
it really depends on the characteristics of the dysplasia. We have some experience with this and in general FS does really well, but if it's a large region of cortex that is 8mm thick things will probably fail. Do you have a highres FLAIR/T2? That can help. If you upload the subject I'll take a look Bruce On Sat, 9 Nov 2013, Jonathan DuBois wrote: Hi All, I have run recon-all on a subject with a large cortical dysplasia, and while the segmentation (aseg) seems to be relatively correct, there is a large region of dysplasia not included by the pail surface. The normalized intensity values for the cortex and the excluded region are very similar so it seems that there is a threshold related to the distance from the white matter surface to the pial surface, or perhaps normal gyrification that is constraining the pial surface. Is there a recon-all or expert option for surface reconstruction of abnormally thick cortex? Thanks in advance, JonathanThe 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.