Another note, I just did a little experimenting, and it appears that using
a RAS oriented image for the initial recon-all run (I've been using all LAS
images) will fix the left-right flipping that occurs with mri_surf2surf.
However the mesh is still oriented incorrectly, such that a-p is facing
su
Hi Doug,
Thanks for your continued help with this.
I use freeview -v rawavg.mgz -f lh.pial.native
The problem I was mentioning in my first message though, is that the native
pial surface mesh output from mri_surf2surf is only oriented correctly in
freeview, but not in any other mesh viewer (such
When I run your commands, the pial is correctly oriented and placed.
What is your freeview command? This is what I use
freeview -v rawavg.mgz --surface ../surf/lh.pial.native:edgecolor=yellow
On 09/23/2014 06:11 PM, Zachary Greenberg wrote:
> Hi Doug,
>
> Thanks for getting back to me and sorry
Hi Doug,
Thanks for getting back to me and sorry for the delay. Yes I can actually.
If I corregister the CT to orig.nii and then pick out the points in
freeview they look pretty good. This is a pretty painful process though. Is
there an easy way to save a set of points in a text file from freeview
Can you get it to display correctly on the pial surface in conformed space?
On 09/17/2014 08:04 PM, Zachary Greenberg wrote:
> Hello Freesurfer experts,
>
> I am having a tough time getting my pial surfaces into the correct
> anatomical space. I work with ECoG Patients, so we have pre-implant
>
Hello Freesurfer experts,
I am having a tough time getting my pial surfaces into the correct
anatomical space. I work with ECoG Patients, so we have pre-implant high
resolution T1s (GE SPGR), and post-implant high resolution CTs that show
the location of ECoG electrodes within the patient's skull.
