Dear Doug Greve,
Many thanks for your reply, however when I overlay group1.mgh and
group2.mgh on my average subject, they look pretty similar.
So I read it in matlab, using load_mgh(group*.mgh), which gave me
files having exactly the same structure as beta.mgh (size of 23406 x
1 x 7 x
did you look at the surface? You'll probably need to either fix the
watershed, or manually disconnect the cerebellum
On Wed, 14 Feb 2007, Alex
Fornito wrote:
Is there anything that can be done? (e.g., tweaking certain parameters)
Alex Fornito
JN Peters Research Fellow
Melbourne
something like:
mri_surf2surf --s subject --hemi lh --sval input --tval output --fwhm 5
doug
Goldman, Aaron (NIH/NIMH) [C] wrote:
Hi, I'm attempting to do thickness analysis based on the guide at:
http://surfer.nmr.mgh.harvard.edu/docs/ftp/pub/docs/fsgroupana.pdf
For the smoothing part
Recently (7 Feb 2007) mris_wm_volume for 32bit centos was posted in
/pub/dist.
Is there any possibility of posting 64bit centos versions of
mris_wm_volume mris_volume?
I'm running Freesurfer 3.0.4
Many Thanks,
Jenifer
___
Freesurfer
Marie Schaer wrote:
Dear Doug Greve,
Many thanks for your reply, however when I overlay group1.mgh and
group2.mgh on my average subject, they look pretty similar.
So I read it in matlab, using load_mgh(group*.mgh), which gave me
files having exactly the same structure as beta.mgh
Hi, when I use mri_anatomical stats - I get a total WM value 503450 for
left and right hemispheres
that's the same number in the stats file in the stats folder.
but when I use mris_wm_volume - I get 174896 and 178464
which one is the accurate one?
also, is the GM volume I get from
I have a question regarding editing the pial surface. Many times it
includes bright spots, such as fat or vessels. Should I be editing this
out? I'm pretty clear on getting rid of included dura, but if I spent the
time to edit out every little bright spot, it would be pretty time
intensive.
Jenifer,
The 32bit version of the tools will also work on 64bit systems. But
I've just uploaded the 64bit centos versions for you if you want those.
Goto:
ftp://surfer.nmr.mgh.harvard.edu/pub/dist
and get:
mris_volume_x86_64.tar.gz
and copy to your $FREESURFER_HOME/bin and type:
tar
Anil,
Can you send me the orig.mgz file? You can upload it to my email
address via:
https://www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Nick
On Wed, 2007-02-14 at 14:54 -0600, Anil Roy wrote:
Hi All,
I followed the steps in the tutorial on tkregister2 to align the two
can you tell us the details of the acquisition? The contrast is
intrinsic, and it has to be sufficient for g/w segmentation.
On Wed, 14 Feb
2007, Anil Roy wrote:
Nick,
The files were acquired axially(120 slices) on a GE scanner. These scans are
a couple of years old. I should also inform
Hello all,
This is an error I got while running the longitudinal
analysis on one of our subjects.It didnt create the
filled.mgz volume and so the surfaces weren't created.
[EMAIL PROTECTED] Fill Tue Feb 13 20:59:04 MST 2007
/ud/chacko/freesurfer/subjects/apoe/1279MRI4/mri
mri_fill -a
Anil,
On this page:
http://surfer.nmr.mgh.harvard.edu/fswiki/FreeSurferBeginnersGuide
there is a TIFF image of some example scans having decent contrast.
Nick
On Wed, 2007-02-14 at 17:03 -0500, Bruce Fischl wrote:
can you tell us the details of the acquisition? The contrast is
intrinsic,
Anil,
I was able to successfully run -autorecon1 (after performing my own tal
alignment). This included the skullstrip.
How much memory does your machine have? It needs to have at least 2GB.
Nick
On Wed, 2007-02-14 at 15:49 -0600, Anil Roy wrote:
Nick,
The files were acquired
Here are the details of the acquisitions:
Images acquired on a 3T Signa scanner with a standard GE head coil. 3D
T1-weighted spiral volume scan (120 slices, 1.4875-mm thick, TR = 20 msec,
TE = 6 msec, 40 degrees flip angle, 256 * 192 matrix)
The machine has 4 gigs of RAM. Also, AFNI is able to
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