Hi Alex,
the gyri will should have negative mean curvature and the sulci positive.
You can overlay the ?h.curv map to check.
cheers,
Bruce
On Thu, 25 May 2006, Fornito,
Alexander wrote:
Hi,
I have some labels that I've drawn, which correspond to the gyral crown and
sulcal fundus of a give
Dear all,
In group analysis, how should I determine which value to use for the
Gaussian fwhm smoothing kernel? Is there a recommended number?
Thanks,
Sasha
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There's no real good answer to this, either in the volume or the
surface. We usually go from 5-20mm. Some considerations are:
1. Make fwhm = size of your activation.
2. More smoothing can sometimes compensate for misregistration
3. Smoothing does affect multiple comparisons.
doug
Sasha W
Hi Sasha,
it depends on how many subjects you have in your study (more subjects,
less smoothing required), and how anatomically localized you believe your
effects should be (more localized less smoothing). Note that in general you
don't pay nearly as steep a price for extremely large smoothing
Sorry, got it wrong way around.
Either way, when I run mris_anatomical_stats on labels that I have created, I
tend to get positive values for mean curvature for labels of both gyral crowns
or sulcal fundi. Are the curvature values provided by mris_anatomical_stats
unsigned?
Alex Fornito
M.Psych
This sounds like a bug we were having on certain platforms. Nick?
Fornito, Alexander wrote:
Sorry, got it wrong way around.
Either way, when I run mris_anatomical_stats on labels that I have created, I tend to get positive values for mean curvature for labels of both gyral crowns or sulcal
which curvature values. Can you send the output?
On Fri, 26 May 2006, Fornito, Alexander wrote:
Sorry, got it wrong way around.
Either way, when I run mris_anatomical_stats on labels that I have created, I
tend to get positive values for mean curvature for labels of both gyral crowns
or sulca
Alex,
which freesurfer release are you using?
Nick
On Thu, 2006-05-25 at 17:59 -0400, Doug Greve wrote:
> This sounds like a bug we were having on certain platforms. Nick?
>
> Fornito, Alexander wrote:
> > Sorry, got it wrong way around.
> > Either way, when I run mris_anatomical_stats on la
Title: Olivier Piguet, Ph
Good morning,
I recently installed the new version of FreeSurfer and have been
re-familiarising myself with the steps/procedures. I followed the
FreeSurfer and FsFast tutorial which went fine until I tried the step
described in the FsFastTutorial/700: Motion correct
You need to install afni. It used to be that we distributed afni with
freesurfer but we dont any more.
http://afni.nimh.nih.gov/afni
doug
Olivier Piguet wrote:
Good
morning,
I recently installed the new version of FreeSurfer and have been
re-familiarising myself with the steps
Dear Bruce, Steve, et al,
have you compared the output of mri_watershed with betsurf?
I ran a T1 volume through mri_watershed with the -surf output options.
I also ran the same volume through betsurf. When comparing the two
volumes, I specified an offset of -128 for the betsurf output. I
expec
Hi Darren,
I can't really make much out from this image. What specifically are you
concerned about?
Bruce
On Thu, 25 May 2006, Darren Weber wrote:
Dear Bruce, Steve, et al,
have you compared the output of mri_watershed with betsurf?
I ran a T1 volume through mri_watershed with the -surf o
I'm running
$Id: recon-all-nmr,v 1.104 2005/09/07 15:59:46 greve Exp $
On Debian.
Alex Fornito
M.Psych/PhD (clin. neuro.) candidate
Melbourne Neuropsychiatry Centre and Department of Psychology
National Neuroscience Facility
The University of Melbourne
Levels 2 & 3, Alan Gilbert Building
161 B
I mainly interested in the mean curvature.
This is output for a gyral ROI:
% 1001365:
647773 395 12973.145 0.780 0.151 0.027 4.123 0.572
This is for a sulcal ROI;
% 1001365:
647773 563 16932.992 0.567 0.121 0.068 48.616 4.783
Cheers,
Alex
1. Is there a matlab function to read the colortable from an annot file?
2. Is there a reason why several of the annotvalues generated by the
classifier using rh.atlas2005_simple.gcs do not have corresponding names in
surface_labels.txt? I remember there was a release where there was a
separate col
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