Hi Jessica,
what do you mean by "better resolution for my data"?
Bruce
On Mon, 27 Jun 2011,
Jessica Liu wrote:
Hi all,
I know that freesurfer recommends an isotropic voxel size, but I found that a
voxel size of 1.2x1.2x1.6 at 1.5T actually gives a better resolution for my
data. Would th
Hi all,
I know that freesurfer recommends an isotropic voxel size, but I found that
a voxel size of 1.2x1.2x1.6 at 1.5T actually gives a better resolution for
my data. Would the different voxel size significantly affect the outcome of
the volumetric segmentation? Thanks!
Jessica
___
Hello,
I am using FS 5.1 to measure lGI (local Gyrification Index). Only one
particular scan failed. Here are some messages:
³... remeasuring lGI value for vertex iV = 65101. It may take a few minutes.
WARNING -- Problem for vertex iV = 65101, lGI value is aberrantly high
(lGI=56.5472)...
...lGI
Hi,
I have some problems with tkmedit. The recon-all finished without
problems, but when using tkmedit the following error occured:
/usr/local/freesurfer//tktools/tkmedit.bin: error while loading shared
libraries: libXmu.so.6: cannot open shared object file: No such file or
directory
I was
Hi New Fei,
The subfield volume estimates are given in number of voxels of size
0.5mm isotropic - you'd need to divide by a factor of 8 to obtain
measurments in mm^3.
The sum of the subfield volumes will not be the same as the total
hippocampal volume in aseg.stats because the used computational
Hi,
I have a couple of questions about hippocampal subfield segmentations
generated using the kvlQuantifyHippocampalSubfieldSegmentations.sh script
(recons performed using version 5.1).
The volumes obtained for each individual subfield are systematically
larger than the total hippocampal segmenta
Hi Maria,
The fix is done and should be available in tomorrow's dev build.
Ruopeng
On 06/27/2011 12:13 PM, iac...@nmr.mgh.harvard.edu wrote:
> Hi all,
>
> I haven't had any answer to my post, so I give another try. Hope it
> doesn't bother you.
>
> I am trying to overlay a map on a specific su
Hi Maria,
I've tested the files you sent me and were able to replicate the
problem. Will work on it asap. Sorry about the delay.
Ruopeng
On 06/27/2011 12:13 PM, iac...@nmr.mgh.harvard.edu wrote:
> Hi all,
>
> I haven't had any answer to my post, so I give another try. Hope it
> doesn't bother
Hello,
I am brand new to this software (and command for that matter) and need some
help. After installing all the software, when I enter tkmedit in the xterminal,
I receive an error message that looks like this:
X Error of failed request: BadRequest (invalid request code or no such
operation)
Hi all,
I haven't had any answer to my post, so I give another try. Hope it
doesn't bother you.
I am trying to overlay a map on a specific subcortical structure (the
caudate).
-I obtained the surface of the structure using the command:
mri_tessellate structure.nii.gz 1 lh.structure.surf
-then
Dear Freesurfer experts,
I am trying to visualize the volumes and surfaces but I got an error wile
using tkmedit.
I will appreciate any help, suggestions.
This is from bugr:
FREESURFER_HOME: /usr/local/freesurfer/
Build stamp: freesurfer-Linux-centos4-stable-pub-v5.1.0
RedHat release: Fedora
Hi Martin,
That worked! Thanks a lot,
Seán
On 23 June 2011 18:22, Martin Reuter wrote:
> Hi Sean,
>
> I think the --out... names need to be without the ending (mgh)
> so for example --out-avg=long23.thickness-avg
>
> Maybe that'll fix it.
>
> Best, Martin
>
> On Thu, 2011-06-23 at 09:12 -0700,
Hi Juergen,
This looks like an error very early in the hippocampal subfield
segmentation routines. Could you please send me the file
hippo-subfields.log (found in the "scripts" subdirectory of the
subject in question), and ideally the files nu.mgz, aseg.mgz, and
transforms/talairach.xfm files (fou
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