Hi
I was able to view the statistical maps (from FSL) on the subject's surface following the tutorial (FsTutotial/FSLFeatFreeSurfer). I would like to see the same image in Matlab. I could show the subject's surface as well as the the cortical parcellation in Matlab by modifying the functions freesurfer_read_surf.m and read_annotation.m. I do not know how to overlap the statistical map onto the surface then. Is there any Matlab function I can use? Thanks.
Best,
Yunjie
You can use feat2surf (or mri_vol2surf directly), this will create something like lh.zstat1.mgh. You can then use lhz1 = MRIread('lh.zstat1.mgh');
doug
Yunjie Tong wrote:
Hi
I was able to view the statistical maps (from FSL) on the subject's surface following the tutorial (FsTutotial/FSLFeatFreeSurfer). I would like to see the same image in Matlab. I could show the subject's surface as well as the the cortical parcellation in Matlab by modifying the functions freesurfer_read_surf.m and read_annotation.m. I do not know how to overlap the statistical map onto the surface then. Is there any Matlab function I can use? Thanks.
Best,
Yunjie
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Thanks Doug,
However, I do not know how to interpret the data. For example, my lhz1.vol has dimensions of 1x9022x17. What does that mean? I am looking for the vertex and faces, with which I could display them in Matlab using patch. Do I miss something? Thanks.
Best,
YJ
On Jan 6, 2009, at 12:44 PM, Doug Greve wrote:
You can use feat2surf (or mri_vol2surf directly), this will create something like lh.zstat1.mgh. You can then use lhz1 = MRIread('lh.zstat1.mgh');
doug
Yunjie Tong wrote:
Hi
I was able to view the statistical maps (from FSL) on the subject's surface following the tutorial (FsTutotial/FSLFeatFreeSurfer). I would like to see the same image in Matlab. I could show the subject's surface as well as the the cortical parcellation in Matlab by modifying the functions freesurfer_read_surf.m and read_annotation.m. I do not know how to overlap the statistical map onto the surface then. Is there any Matlab function I can use? Thanks.
Best,
Yunjie
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
In order to help us help you, please follow the steps in: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
you'll only get the vertices. If you multiple those dims together, you'll get the number of vertices in the subject's surface, so just reshape it to 1d
doug
Yunjie Tong wrote:
Thanks Doug,
However, I do not know how to interpret the data. For example, my lhz1.vol has dimensions of 1x9022x17. What does that mean? I am looking for the vertex and faces, with which I could display them in Matlab using patch. Do I miss something? Thanks.
Best,
YJ
On Jan 6, 2009, at 12:44 PM, Doug Greve wrote:
You can use feat2surf (or mri_vol2surf directly), this will create something like lh.zstat1.mgh. You can then use lhz1 = MRIread('lh.zstat1.mgh');
doug
Yunjie Tong wrote:
Hi
I was able to view the statistical maps (from FSL) on the subject's surface following the tutorial (FsTutotial/FSLFeatFreeSurfer). I would like to see the same image in Matlab. I could show the subject's surface as well as the the cortical parcellation in Matlab by modifying the functions freesurfer_read_surf.m and read_annotation.m. I do not know how to overlap the statistical map onto the surface then. Is there any Matlab function I can use? Thanks.
Best,
Yunjie
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
In order to help us help you, please follow the steps in: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
freesurfer@nmr.mgh.harvard.edu
-
Doug Greve -
Yunjie Tong