In the FreeSurfer reliability paper, you recommend linearly registering the
subject's meshes to each other and point to the Jenkinson paper. How actually
is this done with FLIRT?
Dr Damian Jenkins
Department of Clinical Neurology
Oxford University
Once FA results are co-registered is there an easy way to use the wmparc.mgz to
collect the mean FA values by region, or do we need to treat it like FMRI and
make masks of each parcel and collect each mean separately?
Dr Damian Jenkins
Department of Clinical Neurology
Oxford University
Hi,
Computing individual fMRI analysis (several runs) and looking at the
design matrix
(X.mat), I saw that only one regressor represents each condition. I
was expecting that
the number of regressors concerning a condition would be the number of
runs (as SPM).
There are inter-run effect
Hi,
when I launched the command tksurfer to see the constructed pial surface,
only a very small part of the surface can been seen in the window.
I do not know how to fix the problem.
Thanks!
yczhang
2008-04-25
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Freesurfer mailing list
If you have an Nvidia graphics card, you will need to update the driver.
Try running nvidia-installer --update, as root (preferably have your
sysadmin do this).
Nick
On Fri, 2008-04-25 at 21:25 +0800, yczhang wrote:
Hi,
when I launched the command tksurfer to see the constructed pial
Another option to VNC is freenx.
http://wiki.debian.org/freenx
On Thu, 24 Apr 2008, Yaroslav Halchenko wrote:
Thank you Tren,
Actually Nick Schmansky at the time of original request pointed me out
(I believe in an offlist conversation) to xf4vnc, I have built it
then from CVS snapshot (there
Okay, thanks for your help again Nick!
Regarding the scan data: I am actually working with data collected by a
previous member of our lab, and there were indeed some problems... (related
to the SCIC algorithm on our GE scanner). So, our technician created a
program to uncorrect the intensity
Hello,
I was curious if anyone had specific recommendations for correcting ROIs
for total brain volume/ICV. From what I can tell, some groups correct each
ROI by computing a ratio of ROI/total_brain_volume. Other groups, however,
enter total brain volume as a covariate in their statistical
I have not looked at it before, but I do see that it exists on some of
our subjects and not on others. Not sure why, except that it is a small
structure that maybe gets crowded out.
doug
Juranek, Jenifer wrote:
We recently started playing with the ?h.aparc.a2005s annotation files (fsv401).
Irene,
There are two parcellation schemes that freesurfer produces. The ?
h.aparc.annot file contains 35 labels, while ?h.aparc.a2005.annot
contains 78 labels. If you specify ... -a aparc.a2005s.annot in the
mris_anantomical_stats command, you will get the 78 labels.
The two schemes are
FREESURFER_HOME: /Applications/freesurfer
Build stamp: freesurfer-Darwin-leopard-stable-pub-v4.0.3
Kernel info: Darwin 9.0.0 i386
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I recently updated to the newest release of freesurfer because for
some reason I was unable to run qdec with 4.0.2. Though it appears
that everything is
Jennifer,
I think you have the PowerPC build, but your machine has an Intel
processor. Try getting the one named:
freesurfer-Darwin-leopard-i686-stable-pub-v4.0.3-full.dmg
Although in principle (as stated by Apple) PowerPC code can be emulated
on the Intel processor, in practice it looks like
Hi Freesurfer Users,
This may be a newbie question. I am trying to evaluate regional
volumes. I have been able to tabulate the gray matter volumes, but
cannot figure out how to tabulate all the white matter volumes. I see
that in individual folders, there is a file called wmparc.stats. Do
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