Ok. I need of the entire gray matter discretized in small volumes (cubic
for example), because I must to identify every point of the gray matter
(surface and internal).
Pratically I want to have the coordinates of every points included in
this volume, and use them for my elaboration. At the beginning I was
using the $h.pial meshes; I had loaded the mesh in a matlab
environment, trying to discretize the volume suttended by this in small
cubic volumes ( with the coordinates of the center of each ones as
reference), but the computational cost of this process was too high and
the results not enough accurate. Now I' m trying to use directly the
brain.finalsurfs.mgz; I have loaded this file in a matlab environment
and I'm trying to identify the gray matter voxels according to the
associated value in the grid of each slices ( I see that these voxels
are binarized at 80, more or less).
What I want ask you if the brain.finalsurfs.mgz is the more detailed
file in which there are the coordinates of all the internal points of
the gray matter and if there is a list explaining how the values of the
points of every slices are associated to the regions of the head.
Moreover I see that freesurfer generates some files called $h.volume
during the step -surfvolume; do you know what kind of information is
stored in these files and how to open it? I'm searching in freesurfer
site for a code ables to read .volume files, but I haven't found
nothing; at least I can write a matlab code to read them, but I don't
know how (and what kind of) informations are stored.
Regards
Tommaso De Marco
Doug Greve wrote:
Can you give more details as to what you are trying to do?
Tommaso De Marco wrote:
Dear Doug Greve,
I have tried to use mri_surf2vol command, but the results obtained
aren't enough detailed. I have found a matlab code to open .mgz files
and so I'm working on the brain.finalsurfs.mgz file. Do you know if
there is a list explaining how the values of the points in this file
are associated to the regions of the head?
Regards
Tommaso De Marco
Doug Greve wrote:
You can use mri_surf2vol to create a mask. Is that what you mean?
doug
On Tue, 30 Sep 2008, Tommaso De Marco wrote:
Hi,
I'm a freesurfer user beginner. I need to discretize the gray
matter in a cubic mesh. I have extracted the $h.pial and $h.white
surfaces, and I would know if it is possible in freesurfer to
discretize the volume suttended by these surfaces. I have seen that
there are some files called $h.volume; what kind of information is
stored in these files? Is it possible to open them in a matlab
environment or with tksurfer?
Regards
Tommaso De Marco
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