Hi Chris,
check the intensity of the temporal lobe white matter that is missing. If
it is significantly lower than 110, try adding some control points in the
white matter (making sure it is not partial volumed - it must be completely
wm), then run autorecon2-cp and autorecon3. You are probably
Hi QQ,
do you have enough free disk space? Can you try running:
zcat /usr/local/freesurfer/subjects/am03/mri/T1.mgz >
/usr/local/freesurfer/subjects/am03/mri/T1.mgh
and see if it works?
Bruce
and see if it
On Wed, 9 Sep 2009, QQ Liu wrote:
> Hi all,
>
>In order to find the debug of th
Hi Alia,
that's a tough one as it will be difficult to recover the true
geometry/topology. What do you think it should do in this case? The images
you sent seemed like reasonable representations of the anatomy to me. I
guess you could try filling in the hole in the wm.mgz. Definitely do *not*
You can use defect-seg (see the --help) to help explore defects.
doug
Bruce Fischl wrote:
> Hi Chris,
>
> check the intensity of the temporal lobe white matter that is missing. If
> it is significantly lower than 110, try adding some control points in the
> white matter (making sure it is not p
Hi Ben,
I would be pretty surprised if you can get a reasonable surface from the
MNI152. I would have thought it was too blurry to distinguish many of the
gyri from one another.
That said, if you do have one, you can make labels in the volume and sample
them onto the surface with tksurfer by j
Ben might be using Oliver Lyttelton's mean MNI152 surface (i.e., the
average of all 152 subjects' surfaces on the MNI mesh, as registered
using CIVET).
On 09/09/2009 11:31 AM, Bruce Fischl wrote:
> Hi Ben,
>
> I would be pretty surprised if you can get a reasonable surface from the
> MNI152. I
Hi,
I’m trying to average 2 labels together, but haven’t seen any script out
there that does this.
Essentially we used ROI localizer tasks to create individual labels for each
of our subjects. For visualization purposes, we created an average brain,
and used mri_label2label to map each individual
Some people asked me how to enable Auto Redraw in TKSurfer in the virtual
machine distribution of FreeSurfer.
A video tutorial was placed in YouTube:
http://www.youtube.com/watch?v=9573UYJxlok
---
Pedro Paulo de M. Oliveira Junior
Diretor de
mris_spherical_average will do it for you.
cheers,
Bruce
On Wed, 9 Sep 2009, David Brang
wrote:
> Hi,
> I?m trying to average 2 labels together, but haven?t seen any script out
> there that does this.
>
> Essentially we used ROI localizer tasks to create individual labels for each
> of our subje
Hi all,
If one installs Freesurfer on Ubuntu, should he/she prefer the desktop
version of Ubuntu or server edition? Does it matter?
Thank you,
Burcu Aysen Urgen.
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Burcu Ays,en Ürgen wrote:
> Hi all,
>
> If one installs Freesurfer on Ubuntu, should he/she prefer the desktop
> version of Ubuntu or server edition? Does it matter?
>
From FreeSurfer's perspective, it doesn't matter all that much if at
all -- depends more on what other tasks you want the machin
Yes, everything Rudolph said.
Also, the FreeSurfer we package for Ubuntu is actually a CentOS build
because Ubuntu is a flavor of linux like CentOS and since FreeSurfer
package is self-contained everything should work once you un-tar-gz.
The only things we don't bundle are X server and OpenGL
Hi Nick-
I've shortened the run time of the script (attached) by comparing the
size of the two labels and restricting the search to only those vertices
that exist in the smaller label.
My logic is that there can't possibly be any more matching vertices than
the size of the smaller label, so
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