you the indices in the aseg volume of the voxels that have
> the brainstem label (16). Then you can do what you want with it. The label
> came from $FREESURFER_HOME/FreeSurferColorLUT.txt
>
>
> cheers
> Bruce
>
> On Tue, 19 Jul 2016, Abbie McNulty wrote:
>
> So say I loa
If i just wanted to plot the brainstem
On Tue, Jul 19, 2016 at 12:00 PM, Abbie McNulty
wrote:
> Perfect.
> now if I wanted to use plotmesh with this, what would the variables be for
> x and y: plotmesh('x,y')
>
> On Tue, Jul 19, 2016 at 11:40 AM, Bruce Fischl >
you are using
> directly into matlab? Then each structure has a different index that you
> can extract with the find command
>
>
> cheers
> Bruce
> On Tue, 19 Jul 2016, Abbie McNulty wrote:
>
> I attached the page in the last message, maybe it didn't show. I guess
>&
vert them at all? Just load the aseg.mgz (or whichever
> segmentation you are interested in) into matlab directly
>
> cheers
> Bruce
>
>
>
> On Tue, 19 Jul 2016, Abbie McNulty wrote:
>
> Hi Bruce,
>> So when I'm at this page, I am separating the different pa
So we were able to figure out how to segment the different parts of the
brain using the bert sample, but have run into another problem.
I would like to save each segmentation so that I can import it into matlab
and create a matrix in order to create a mesh. The volume segment saves a
as a .vtk file
Hello,
Just a couple more questions that would be great if you could answer in
explanation form:
How do people develop finite element models from brain MRI?
How do people learn and implement the software on an example data set?
Abbie
On Tue, Jul 5, 2016 at 9:42 AM, Abbie McNulty wrote
Essentially, once segmentation is achieved, how do you mesh the scans?
On Mon, Jun 27, 2016 at 3:41 PM, Abbie McNulty
wrote:
> Hi Bruce,
>
> I am trying to create a mesh of the MRI scans, eventually with imported
> scans, but for now just using the information available through th
u could mesh, but we don't
> by default.
>
> cheers
> Bruce
> On Mon, 27 Jun 2016, Abbie McNulty wrote:
>
> > Hello,
> > I am trying to segment a MRI brain in order to create a mesh of the image
> > into finite elements, but I am very new with Freesurfer/Free
brain, how
should I proceed? The online tutorials have confused me especially since I
am not sure if I am supposed to be using the terminal or the command window
for a lot of the code commands.
Any help would be appreciated.
Thanks!
Abbie McNulty
--
Abigail C. McNulty
Stanford University Class of
