Hi Mark,
Did you see my post from 1/10/2012 ("anterior temporal lobe problems")?
We had good success (albeit not perfect) in improving our anterior
temporal surfaces using the options mentioned there.cheers, -MH On Mon, 2012-08-20 at 14:43 -0500, Mark Fletcher wrote: > Dear FreeSurfers, > > I have been working on cross-sectional MRI's of healthy older adults > (55-88), and have been correcting the FreeSurfer 5.1 output using the > instructions given here > (http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/TroubleshootingData) to > correct the FreeSurfer errors that we have found. For the majority of the > subjects, we have been able to fix the errors as described by your website. > However, for about 7 of our subjects, whenever we attempt to add WMCP to > non-traced white matter regions (especially noticed in the anterior region of > the temporal lobe), the new "main surface" and "Pial" tracings end up much > worse than they were originally (thus, new problems that never previously > existed are created). At this point we have tried a variety of things. We > have tried going back to the original FreeSurfer Output to add WMCP > differently, yet a variety of new problems are consistently being created > (on some of these subjects we have tried over 10+ different ways of adding > WMCP in order to fix the brains). After this has occured, we simply tried > fixing the "new problems" as well, but it has created a never ending loop of > new problems (upon fixing the new problems, even newer problems were > created). For some of our subjects (besides these 7), this eventually leads > to a correct segmentation. However, for these 7, we have been unable to ever > end up at an adequate tracing?? I would love you send you images and or the > files themselves to figure out how to proceed (however, when I tried to send > it as an attachment my message was rejected due to size issures). Is there a > way I can directly send you the FS output (via a ftp site, or dropbox) so you > can look at the problem directly? The IRB has approved our "sharing" of this > data if it helps us in our processing. > > Also, do you have any suggestions on how we might proceed? Is there a > way besides adding WMCP to assist our fixing of the anterior temporal > regions? Thanks in advance. > > Sincerely, > Mark Fletcher > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > 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. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
