Hi Christopher
that won't work as we assume that the surfaces have the same topology (#
of edges, vertices and triangles). You'll need to use a distance
transform I expect, which shouldn't be too bad. Check out
mris_distance_transform. You'll want to run it with the pial surface,
then pick out the samples on the scalp surface (or the other way)
cheers
Bruce
On Tue, 20
May 2014, Christopher Chatham wrote:
Dear Freesurfer experts,
I would like to get a map of scalp-cortex distance for every vertex on the
pial surface (for use in predicting the effects of TMS). I believe there is
no existing automated method for doing this.
Are there any suggestions for how to calculate a scalp-cortex distance map?
My current plan is simply rename my files so that the outer_skin takes the
place of the pial surface, and the pial surface takes the place of the white
matter boundary. Would this allow me to run mri_thickness as normal and get
a scalp-cortex distance map?
Alternatively, I might create a new version of mris_thickness.c in which all
references to the "white" surface are replaced with references to the
outer_skin surface constructed by mri_watershed, though I am new to c and
thus hesitant to take this approach. (Also, I have only a MEMPRAGE and no
FLASH 5/30 sequences, so I cannot use mri_make_bem_surfaces; is the latter
is still considered preferable?)
Any suggestions or thoughts would be highly appreciated.
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