Dear Freesurfer users
We have done a cortical thickness group comparison, but we are not
absolutely sure which color corresponds to which contrast. In our *.mat file
we specified -1 1 0 0 0 0, but the sig.mgh file shows both directed
contrasts (group1 > group2 and group1 < group2).
Where can we l
Hello,
I would like to install FreeSurfer on Mandrake 10.2 (Mandriva), and would
like to know which version I should download. The available versions
appear to be for: CentOS 4, CentOS 4 x86_64, or Red Hat 9. Also, posts
to the archive seem to suggest that Mandrake may not be an optimal
platfor
No, the reg to the individual space is appropriately 6dof as the input
and ref are the same subject. The gfeat is a group map combined with a
linear transform. There is no appropriate aseg for this space.
doug
Eric Feczko wrote:
Hey,
I noticed on the freesurfer wiki a workflow for registe
This is not actually an error, just a warning that it cannot find the
.mat file. The .mat file is not part of the analyze spec but was
something created by SPM to hold direction cosine info, and we have
since adopted it. If the .mat file is not there, then freesurfer will
make certain assumptio
Hi Dahlia,
I don't have a replacement for surf-sess yet that does not use the .w
files, but you can run tksurfer directly, something like:
tksurfer subject lh inflated -overlay-reg sess/bold/register.dat
-overlay sess/bold/analysis/contrast/sig.bhdr
btw, I am currently testing some new sof
red/yellow indicates that the contrast is postive. The contrast is:
gamma = -1*beta1 + 1*beta2 + 0*beta3 + 0*beta4 + 0*beta5
so, if beta1 corresponds to group1 and beta2 group2, then
gamma = -group1 + group2
so when gamma > 0, it means that group2 > group1
doug
Juergen Haenggi wrote:
De
Hello everybody,
Following the question of Jorge Luis yesterday, I was wondering if
the option "marked only" in "Set threshold using FDR" could be an
option to get FDR corrected results on parcells of the cortical
surface? However, when I load ROI and click on "marked only", the
terminal
Hi Jess,
It certainly is a problem, from the snapshots though it looks like there
is some visible contrast there, so control points should help. be sure to
only place them in true WM regions, and avoid partial volumed voxels. A
few spread out on each slice should do the trick - no need to ov
Hi Jenni--Ok, I'm running a couple with control points and I'll see how
they come out. Yes, the aseg is not any better--do I need to fix that
separately or will the control points work on that??
Thanks,
Jess
-Original Message-
From: Jenni Pacheco [mailto:[EMAIL PROTECTED]
Sent: Thursday,
