Dear freesurfer experts,
I draw a path with the tksurfer tools on a surface, but was not able to save this path as a label. During the custom fill step it marked the whole surface and not just the path. I think it is because the path is not closed. Is there still a way to get a path as a label file?
cheers,
erhan
Yes, you probably need to generate a closed path, or a closed cut. I'm not sure if we support saving paths as label files. Anyone know?
Bruce On Wed, 7 Mar 2012, Erhan Genc wrote:
Dear freesurfer experts, I draw a path with the tksurfer tools on a surface, but was not able to save this path as a label. During the custom fill step it marked the whole surface and not just the path. I think it is because the path is not closed. Is there still a way to get a path as a label file?
cheers,
erhan
-- Dipl. Psych. Erhan Genc Max Planck Institute for Brain Research Department of Neurophysiology Deutschordenstr. 46 60528 Frankfurt am Main -GERMANY- phone: +49 (69) 96769-471 fax: +49 (69) 96769-327 e-mail: genc@mpih-frankfurt.mpg.de http://www.brain.mpg.de/research/singer-emeritus-department/people/erhan-gen...
Hi Bruce, thanks for your reply. I was interested in computing the distance between two labels (or within a label), the idea was to export the this "path label" and e.g lh.orig into matlab and then determine the distance along the surface.
Do we have tool for this issue in freesurfer?
cheers,
Erhan
2012/3/7 Bruce Fischl fischl@nmr.mgh.harvard.edu
Yes, you probably need to generate a closed path, or a closed cut. I'm not sure if we support saving paths as label files. Anyone know?
Bruce
On Wed, 7 Mar 2012, Erhan Genc wrote:
Dear freesurfer experts,
I draw a path with the tksurfer tools on a surface, but was not able to save this path as a label. During the custom fill step it marked the whole surface and not just the path. I think it is because the path is not closed. Is there still a way to get a path as a label file?
cheers,
erhan
-- Dipl. Psych. Erhan Genc Max Planck Institute for Brain Research Department of Neurophysiology Deutschordenstr. 46 60528 Frankfurt am Main -GERMANY- phone: +49 (69) 96769-471 fax: +49 (69) 96769-327 e-mail: genc@mpih-frankfurt.mpg.de http://www.brain.mpg.de/**research/singer-emeritus-** department/people/erhan-genc/http://www.brain.mpg.de/research/singer-emeritus-department/people/erhan-genc/
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/**compliancelinehttp://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.
Hi Erhan
this is what we typically use the spherical coordinate system for. Just compute the distance along the great circle connecting two points (for your example it would be the centroid of the labels, or possibly the max of the min over all pairs of points in the two labels, which would be the Hausdorff distance).
cheers Bruce
On Fri, 9 Mar 2012, Erhan Genc wrote:
Hi Bruce, thanks for your reply. I was interested in computing the distance between two labels (or within a label), the idea was to export the this "path label" and e.g lh.orig into matlab and then determine the distance along the surface. Do we have tool for this issue in freesurfer?
cheers,
Erhan
2012/3/7 Bruce Fischl fischl@nmr.mgh.harvard.edu Yes, you probably need to generate a closed path, or a closed cut. I'm not sure if we support saving paths as label files. Anyone know?
BruceOn Wed, 7 Mar 2012, Erhan Genc wrote:
Dear freesurfer experts, I draw a path with the tksurfer tools on a surface, but was not able to save this path as a label. During the custom fill step it marked the whole surface and not just the path. I think it is because the path is not closed. Is there still a way to get a path as a label file? cheers, erhan -- Dipl. Psych. Erhan Genc Max Planck Institute for Brain Research Department of Neurophysiology Deutschordenstr. 46 60528 Frankfurt am Main -GERMANY- phone: +49 (69) 96769-471 fax: +49 (69) 96769-327 e-mail: genc@mpih-frankfurt.mpg.dehttp://www.brain.mpg.de/research/singer-emeritus-department/people/erhan-ge nc/
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.
-- Dipl. Psych. Erhan Genc Max Planck Institute for Brain Research Department of Neurophysiology Deutschordenstr. 46 60528 Frankfurt am Main -GERMANY- phone: +49 (69) 96769-471 fax: +49 (69) 96769-327 e-mail: genc@mpih-frankfurt.mpg.de http://www.brain.mpg.de/research/singer-emeritus-department/people/erhan-ge nc/
freesurfer@nmr.mgh.harvard.edu
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Bruce Fischl -
Erhan Genc