dear freesurfer group,
is there anywhere some cookbook-like instruction for processing monkey
(macaque) brain MRI data with FreeSurfer ? are there any normalized
macaque brain templates needed for FreeSurfer ?
thanks, bye,
pisti
-
[EMAIL PROTECTED]
___
Hello again,
I've been having some problems with FS segmentation, especially around the
temporal lobes, where there is a clear underestimation of the pial surface
(and manual edits are not being too successful). The problem is clearly
related to the poor resolution of the used images.
Are there a
there are plenty of people around doing cortical analysis of monkey data,
but the subcortical atlas only exists for humans.
cheers,
Bruce
On Tue, 6 Jun 2006, Istvan Akos
Morocz wrote:
dear freesurfer group,
is there anywhere some cookbook-like instruction for processing monkey
(macaque) br
what is the resolution of your images? You might as well send us the
complete set of acquisition parameters.
Bruce
On Tue, 6 Jun 2006,
Joao Pereira wrote:
Hello again,
I've been having some problems with FS segmentation, especially around the
temporal lobes, where there is a clear underest
Hello all,
The output of mris_anatomical_stats has a measurement called
TotalWhiteMatterVolume for each hemisphere. From aseg.stat the measures for
cerebellum-white volume and cerebral-white volume for each hemisphere can be
obtain, but the sum of both the measures obtained from aseg is le
Hi Dhruman,
the total white matter volume should probably be removed. It's currently
the total volume of all "on" voxels in the wm.mgz volume, which won't
include cerebellum. I think the aseg values should be more accurate.
cheers,
Bruce
On Tue, 6 Jun 2006, Goradia, Dhruman D
wrote:
Hel
Hi
Can you please post an example of "mri_volcluster" use with fsfast?
more specifically, when i run :
mri_volcluster \
--in
/space/engram/12/users/pman/rk_fmri/Y15_111504/bold/rk_enc_sm5/RNeg_vs_Fix/sig \
--in_type bfloat \
--reg
/space/engram/12/users/pman/rk_fmri/Y15_111504/bold/rk_enc_sm
You are using the wrong register.dat file. Use the one in Y15_111504/bold
doug
Paymon Hosseini wrote:
Hi
Can you please post an example of "mri_volcluster" use with fsfast?
more specifically, when i run :
mri_volcluster \
--in
/space/engram/12/users/pman/rk_fmri/Y15_111504/bold/rk_enc_
Hello,
I have whole brain T1 maps and the pseudo T1-weighted images that I
created out of them (so they are perfectly aligned). The are all brain
extracted using fsl and
I am doing my own tissue segmentation (again, using fsl), but in both
steps there is much optimization involved, because I wan
have you tried just putting your original T1 weighted image through the
recon stream? You can then sample your T1 maps onto the surface (which we
have done in the past). You could plug into our stream after the
segmentation, but you would to mirror our directory/file structure, which
is going t
I installed the new version of Freesurfer by downloading from Freesurfer
Wiki website.
Then, I ran recon-all -subjid subjectname -autorecon1,
and got the following library errors.
Would someone suggest a solution?
Nam.
mri_convert: error while loading shared libraries: libgsl.so.0: cannot open
s
What is the output when this is typed:
source $FREESURFER_HOME/SetUpFreeSurfer.csh
and this:
ldd `which mri_convert`
and what OS is this installed on?
On Tue, 2006-06-06 at 15:24 -0400, Joongnam Yang wrote:
> I installed the new version of Freesurfer by downloading from Freesurfer
> Wiki w
Thanks for the question. Here is the info that I can provide.
(1) When I did 'source' the *.csh, there was no error.
here is the output
freesurfer-Linux-centos4_x86_64-stable-pub-v3.0.3
Setting up environment for FreeSurfer/FS-FAST (and FSL)
FREESURFER_HOME /usr/local/freesurfer
13 matches
Mail list logo
