wiki/mri_cvs_register
>
> and read through the presentation that we give at the FS course:
> http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.registration.ppt
>
> Best, Lilla
>
>
> On Fri, 30 Oct 2015, Shani Ben Amitay wrote:
>
>
>> Hello
>> Can you please direct me to
Dear freesurfer,
Is it possible to get center of gravity for each label/parcel in annotation
file?
Thanks, Shani
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The information
Dear freesurfers,
I would like to know what will be the best way to bring volumes in the
individual subject's space to the fsaverage space.
Thanks,
Shani
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e you more accurate cortical matching and use the
> transform that it produces.
>
> cheers
> Bruce
> On Fri, 30 Oct 2015, Shani Ben Amitay wrote:
>
> Dear freesurfers,
>> I would like to know what will be the best way to bring volumes in the
>> individual su
Hello freesurfers
I would like to preform inter-hemispheric comparison (or
hemispheric asymmetry) for a volume of a single subject.
what would be the best way to do it?
Thanks
Shani
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, Douglas N Greve
gr...@nmr.mgh.harvard.eduwrote:
What do you mean by a volume of a single subject? We have tools to do
surface-based interhemispheric analysis
http://surfer.nmr.mgh.harvard.edu/fswiki/Xhemi
doug
On 01/13/2014 05:28 AM, Shani Ben Amitay wrote:
Hello freesurfers
I would
to convert your surface file into a format that workbench
understand (GIFTI):
mris_convert lh.whiteinraw lh.whiteinraw.surf.gii
Cheers
Saad
On 3 Sep 2013, at 10:57, Shani Ben Amitay shani.hol...@gmail.com wrote:
Thank you!
Still somehow I haven't manage to make it work when I ran
?
Bruce
On Sun, 8 Sep 2013, Shani Ben Amitay wrote:
Sorry to bug again with this issue when converting the freesurfer surface
to
GIFTI using mris_convert the surface is shifted in space.
Does anyone know how to transform it to freesurfer space?
Thanks!
Shani
On Tue, Sep 3, 2013 at 12
:
so you run recon-all, convert to gifti and display that and it doesn't
match the original surface?
On Sun, 8 Sep 2013, Shani Ben Amitay wrote:
Im looking at the gifti and fs surfaces in freeview they are not
aligned.this surface was reconstructed with noaparc and noaseg.maybe
transformation
Shani, I don't think you can apply a FNIRT
transform to a surface.
doug
On 9/2/13 8:20 AM, Shani Ben Amitay wrote:
Dear freesurfer people,
Any idea whether I can apply transformation
that was calculated by fsl
Dear freesurfer people,
Any idea whether I can apply transformation that was calculated by fsl
fnirt on the white/pial surfaces calculated using the freesurfer stream?
Thanks!
Shani
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Hello all
I have created white matter surface of a non primate brain and I'm trying
to use mris_make_surfaces to position the pial surface.
The problem is that the resulted pial surface is miss-positioned-the
'growing' stops very close to the white surface (no gradient visible where
it stops)
Any
Hello Freesurfer
I would like to extract the stream for surface-based analysis on the output
of an in-house segmentation process.
Is this possible?How?
Thanks
Shani
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with
the recon-all script
cheers
Bruce
On Wed, 8 May 2013, Shani Ben Amitay wrote:
Hello Freesurfer
I would like to extract the stream for surface-based analysis on the
output of an in-house segmentation
process.Is this possible?How?
Thanks
Shani
The information in this e-mail
and go from there
On Wed, 8 May 2013, Shani Ben Amitay wrote:
Segmentation into white matter gray matter and CSF of a rat brainCan you
give me brief directions-where to
start from?
Thanks!
Shani
On Wed, May 8, 2013 at 3:46 PM, Bruce Fischl fis...@nmr.mgh.harvard.edu
wrote:
Hi Shani
Dear freesurfers
I'm using bbregister and mri_surf2surf to transform intermediate cortical
surfaces and mid surfaces normals to diffusion space.
Next I'm trying to generate volumes from these surfaces (in the same
diffusion space), however the generated volumes are much thicker then the
:33 PM, Douglas N Greve gr...@nmr.mgh.harvard.edu
wrote:
Hi Shani, what is fs_read_dat.m? I've never seen it before. Why do you
need to transform the surface? What are you using to create the display
below (ie, command line)?
doug
On 01/31/2013 10:53 AM, Shani Ben Amitay wrote:
Dear
, Shani Ben Amitay wrote:
Dear freesurfers,
In order to generate cortical vector normals connecting homologous
vertices
of the inner and outer surface, I would like to better understand how the
gray matter/csf surface is reconstructed and how correspondence between
inner and outer surfaces
Dear freesurfers,
In order to generate cortical vector normals connecting homologous vertices
of the inner and outer surface, I would like to better understand how the
gray matter/csf surface is reconstructed and how correspondence between
inner and outer surfaces is achieved.
Does anyone can
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