Hi
Thanks for the reply. I think all I need are the vertices and faces of a image to show it in Matlab. I can get the vertices and faces of lh.inflated and lh.aparc.annot of the subject. I do not know how to get the vertices and faces of zstat1.nii.gz generated by FSL of the same subject? What kind of transformation I should apply?
Best,
YJ
On Jan 5, 2009, at 4:54 PM, Thomas Yeo wrote:
Hi, can you explain more what you mean by "overlap" the statistical map onto the surface? If you can overlay the cortical parcellation onto the surface, why can't you overlay the statistical map onto the surface?
Cheers, Thomas
---------- Forwarded message ---------- Date: Mon, 5 Jan 2009 15:11:59 -0500 From: Yunjie Tong tongyj@gmail.com To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] How to overlap FSL statistical map onto surface in
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
Have you tried registering the volumetric data to the surface? Flirt will do this, or Doug's very nice new bbregister tool.
cheers, Bruce On Mon, 5 Jan 2009, Yunjie Tong wrote:
Hi
Thanks for the reply. I think all I need are the vertices and faces of a image to show it in Matlab. I can get the vertices and faces of lh.inflated and lh.aparc.annot of the subject. I do not know how to get the vertices and faces of zstat1.nii.gz generated by FSL of the same subject? What kind of transformation I should apply?
Best,
YJ
On Jan 5, 2009, at 4:54 PM, Thomas Yeo wrote:
Hi, can you explain more what you mean by "overlap" the statistical map onto the surface? If you can overlay the cortical parcellation onto the surface, why can't you overlay the statistical map onto the surface?
Cheers, Thomas
---------- Forwarded message ---------- Date: Mon, 5 Jan 2009 15:11:59 -0500 From: Yunjie Tong tongyj@gmail.com To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] How to overlap FSL statistical map onto surface in
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
freesurfer@nmr.mgh.harvard.edu
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Bruce Fischl -
Yunjie Tong