Hi Noam
yes, you should be able to run mri_pretess (or mri_mc) on any volume to
generate a tessellation of any label in the volume you specify
cheers
Bruce
On Thu, 3 Sep
2015, Peled, Noam wrote:
> Hello,
> Is there a way to run mri_pretess on fsaverage? It has no mri/norm.mgz file.
> I'm tryin
Hi Lena
you could use mris_anatomical_stats -l on each subject
to extract the average thickness on each then do the statistical comparison
on that list of numbers.
cheers
Bruce
On Fri, 4 Sep 2015, Lim, Lena wrote:
Thanks, Bruce. I ran the recon-all for all subjects before and then did th
Hi Chester
if you upload the dataset we will take a look
cheers
Bruce
On Fri, 4 Sep 2015, CHESTER DOLPH wrote:
Hello,
I have one brain in a large dataset that is not skull stripping properly. I
have tried the changing watershed parameters using the freesurfer tutorial,
but brainmask.mgz does
Hi Deborrah
I think we fixed this in the dev version
cheers
Bruce
On Fri, 4 Sep 2015, Deborrah
Castillo wrote:
Hi,
After doing cortical edits (removing part of the dura) and running RECON23,
the pial (red line) and white surface (yellow line) are crossing each other
(please see attached ima
you can also use mri_binarize with the --surf option
On 9/5/15 9:32 AM, Bruce Fischl wrote:
> Hi Noam
>
> yes, you should be able to run mri_pretess (or mri_mc) on any volume to
> generate a tessellation of any label in the volume you specify
>
> cheers
> Bruce
> On Thu, 3 Sep
> 2015, Peled, Noam
Hi Freesurfers,
I am interested in studying the difference between the outer and deep white matter volume in my study groups.
I am thinking in the following procedures:
1. If there is any way in Freesurfer to do segmentation for the white matter (only in the depth of 3 cm) starting from the c
Hi John
sorry, meant to respond but spaced it. Have you checked out the
wmparc.mgz? It may have what you need.
cheers
Bruce
On Sat, 5 Sep 2015, John Anderson
wrote:
Hi Freesurfers,
I am interested in studying the difference between the outer and deep white
matter volume in my study groups.
Hi Bruce,
Thank you for your response!
Actually, after reviewing multiple papers ( segmentation in Freesurfer) I found that using "wmparc.mgz" as an input in the command "mri_binarize" will enable me to create two mask ( depending on the white matter parcellate mentioned in wmparc.mgz): The fir
Hi John
I defer to Doug. Not sure he ever published it though
Bruce
On Sat, 5 Sep 2015,
John Anderson wrote:
Hi Bruce,
Thank you for your response!
Actually, after reviewing multiple papers ( segmentation in Freesurfer) I
found that using "wmparc.mgz" as an input in the command "mri_binariz
