FYI, it was the error correction removing a large 'handle'; who needs the inferior temporal lobe anyway. Slight adjustments to the GM/WM peaks was enough to rectify the problem. Thanks again.
Matt On Tue, Jan 26, 2010 at 12:18 PM, Matthew Ward <[email protected]>wrote: > I believe you are right, John. As I'm running it again, the initial > surface generated and displayed (prior to error correction) does not contain > the truncation, so it is most likely the error correction. I will run it > again without error correction to confirm and then try adjusting my peaks; I > won't waste anyone's time (Donna) looking at the data if I can correct it > based on the advice given. Thanks so much, Donna and John, for your help and > prompt responses. > > Best, > > Matt > > > On Tue, Jan 26, 2010 at 11:48 AM, John Harwell <[email protected]>wrote: > >> Matt, >> >> On the Segmentation Operations page, try either unchecking the Volume >> Error Correction Method or setting it to SUREFIT. It is possible that there >> is a large topological defect and the GRAPH (based on Automated graph-based >> analysis and correction of cortical volume topology DW Shattuck, RM Leahy - >> IEEE Trans. Med. Imaging, 2001) algorithm is removing a large handle rather >> than filling a large hole (possibly the gyri that appear to touch in the >> left side of your image). >> >> ----------------------------------- >> John Harwell >> [email protected] >> >> Department of Anatomy and Neurobiology >> Washington University School of Medicine >> 660 S. Euclid Ave Box 8108 >> Saint Louis, MO 63110 >> >> >> >> >> On Jan 26, 2010, at 10:31 AM, Matthew Ward wrote: >> >> > Good morning, everyone. I've recently encountered a problem I haven't >> experienced before (attached). I've segmented this brain several times >> before (but not in a good while) with great results, but I cannot for the >> life of me figure out why my segmentation volume is truncated about 2/3s out >> from the midline. I did not run a full segmentation, just a quick check on >> the GM/WM settings (turned off 'fill ventricles', 'generate inflated/very >> inflated/ellipsoid/cerebral hull and curvature...attributes). Any ideas on >> why this truncation is occurring? When setting the GM/WM cutoffs, the >> segmentation overlay did not show this truncation. Thanks for any help. >> > >> > Best, >> > >> > -- >> > Matt >> > <Picture 11.png><Picture >> 12.png>_______________________________________________ >> > caret-users mailing list >> > [email protected] >> > http://brainvis.wustl.edu/mailman/listinfo/caret-users >> >> >> _______________________________________________ >> caret-users mailing list >> [email protected] >> http://brainvis.wustl.edu/mailman/listinfo/caret-users >> > > > > -- > Matthew K Ward Ph.D., B.Sc. > Research Associate, Vision Sciences > Center for the Development of Functional Imaging > University of Alabama at Birmingham > 205 934-2037 > [email protected] > -- Matthew K Ward Ph.D., B.Sc. Research Associate, Vision Sciences Center for the Development of Functional Imaging University of Alabama at Birmingham 205 934-2037 [email protected]
_______________________________________________ caret-users mailing list [email protected] http://brainvis.wustl.edu/mailman/listinfo/caret-users
