Hi Justin,
usually you don't need to edit the longs, but in your case it sounds
like it makes sense. I think you could try 2 things
- either edit the brainmask in the long
- or edit the brainmask in thebase to be a little tighter there, rerun
all base and all time points after that.
Cheers, Martin
On 07/29/2015 03:47 PM, Justin McKee wrote:
Hi,
Sorry if this is basic- I'm a bit of a novice.
I'm running the longitudinal pipeline on patients with three time
points. For one of the time points the .long pail surface has included
some of the superior sagital sinus as it ascends between the occipital
hemispheres. The white matter mask is good, the base image pial
surface is good, and the original "cross" image for this time point
also doesn't have this artefact.
Reading the longitudinal edits on the wiki it seems to advice agains
editing the .long brainmask -even though I think it would resolve this
situation if this was in a "cross" image/subject? I wondered about
editing the brain.finalsurfs.mgz image? but the wiki is quite specific
about this only being for cerebellar problems.
The occipital lobes are are a region of interest in my study so keen
to get accurate surfaces.
Could you advise on where to go from here to edit this?
I hope the above makes sense and thanks for your help!
Cheers
Justin
/Dr Justin McKee/
/Clinical Research Fellow in Multiple Sclerosis,/
/Nuffield Department of Clinical Neurosciences,/
/University of Oxford/
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
--
Dr. Martin Reuter
Assistant Professor of Radiology
Assistant Professor of Neurology
Harvard Medical School
Assistant in Neuroscience
Dept. of Radiology, Massachusetts General Hospital
Dept. of Neurology, Massachusetts General Hospital
Research Affiliate
Computer Science and Artificial Intelligence Lab,
Dept. of Electrical Engineering and Computer Science,
Massachusetts Institute of Technology
A.A.Martinos Center for Biomedical Imaging
149 Thirteenth Street, Suite 2301
Charlestown, MA 02129
Phone: +1-617-724-5652
Email:
mreu...@nmr.mgh.harvard.edu
reu...@mit.edu
Web : http://reuter.mit.edu
_______________________________________________
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.
