Hi,
FreeSurfer will allow you to generate a grey-matter thickness value at
each point
on the cortex and compare this between two groups in a cross-sectional
study.
There is a version of SIENA, not SIENAX, which will allow you to get
voxel-wise
atrophy (change in grey-matter thickness) when you have _longitudinal_
data
for each subject in your study.
So if you do not have longitudinal data for all subjects then we
recommend
using FreeSurfer.
All the best,
Mark
On 3 Nov 2008, at 21:53, Kim Chi Nguyen wrote:
> I am a little bit confused by this reply of Steve's. I searched in
> the fsl archives with 'cortical thickness' as key word, I saw
> Steve's reply in 2002 http://www.jiscmail.ac.uk/cgi-bin/webadmin?A2=ind02&L=FSL&P=R21194
> and it seems that we can use SIENAX to do cortical thickness
> analysis.
>
> Anyway, I would like to know what is the best way to do cortical
> thickness analysis for different groups of subjects (compare the
> thickness between groups of subjects). Would Steve or any one please
> help me with this? Thank you very much.
>
> Regards,
> Chi
>
> --- On Sat, 11/1/08, Steve Smith <[log in to unmask]> wrote:
> From: Steve Smith <[log in to unmask]>
> Subject: Re: [FSL] Hi and for cortical thickness
> To: [log in to unmask]
> Date: Saturday, November 1, 2008, 5:23 AM
>
> Hi - no, the functionality is very complementary to FreeSurfer; we use
> FreeSurfer for such analyses.
> Cheers.
>
>
> On 31 Oct 2008, at 14:26, Zhang, Xiaochu (NIH/NIDA) [F] wrote:
>
> > Hi FSLers,
> > I want to do a cortical thickness analysis in some ROIs from
> > functional data.
> > I knew freesurfer can do a cortical thickness analysis. However, I
> > never used it. I wonder if there is some similar tools in FSL.
> > Thank you very much!
> >
> > Xiaochu Zhang PhD
> >
> > Visiting Research Fellow
> >
> > Neuroimaging Research Branch
> >
> > National Institute on Drug Abuse - IRP
> >
> > Biomedical Research Center
> >
> > 251 Bayview Blvd.
> >
> > Suite 200 (NIDA)
> >
> > Baltimore MD
> >
> > 21224
> >
> > Tel:
> 443-740-2619
> >
> >
>
>
> ---------------------------------------------------------------------------
> Stephen M. Smith, Professor of Biomedical Engineering
> Associate Director, Oxford University FMRIB Centre
>
> FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
> +44 (0) 1865 222726 (fax 222717)
> [log in to unmask] http://www.fmrib.ox.ac.uk/~steve
> ---------------------------------------------------------------------------
>
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