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Close, but still not what I'm looking for. I start with orig.mgz file and have
RAS. I can convert that to voxel coordinates. I can then convert that to
TkReg RAS/SurfaceRAS coordinates, but what I'm looking for is the Vertex
coordinate. For example, looking at FreeView, I see the following four
coordinates (on Rhemi, for example):
RAS: 54, -78, 1
TkReg RAS (orig): 55, -61, -18
orig: 50 [73, 146, 67]
rh.pial: SurfaceRAS [55, -61, -18]
rh.pial: Vertex 11660 [53.91, -60.35, -18.31]
I can convert back and forth between the top three with ease. I can't figure
out how to get the last coordinate (Vertex).
________________________________
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Ehsan Tadayon
<ehsan.tadayo...@gmail.com>
Sent: Tuesday, September 4, 2018 12:00:53 PM
To: Freesurfer support list
Subject: [External] Re: [Freesurfer] SurfaceRAS to Vertex coordinate system
External Email - Use Caution
Hi Joel,
you need to find the corresponding voxel ( using ras2vox transformation matrix)
and then apply your vox2ras-tkr matrix to it. it would give you the tkrRAS
coordinate.
cheers,
Ehsan.
On Tue, Sep 4, 2018 at 12:40 PM Bruss, Joel E
<joel-br...@uiowa.edu<mailto:joel-br...@uiowa.edu>> wrote:
External Email - Use Caution
If I load, say, orig.mgz and lh.pial, in FreeView and lay my cursor on a point,
I can see RAS (and surfaceRAS) as well as TKReg RAS (orig) coordinates.
Following the steps laid out on the CoordinateSystems web page I can convert
back and forth between those coordinate systems. However, I can't figure out
what I need to do to calculate the Vertex coordinates. I can load lh.pial in
matlab and see the (+1) vertex number and coordinates, but I'd like to figure
out the best way to get from Vertex x/y/z to TkReg RAS or SurfaceRAS. Is there
an easy formula to calculate this? Thanks in advance for any and all responses.
-Joel
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