Thank you for your quick reply Doug. After looking, I think you are referring
to the mri_glmfit tool? Is this the webpage to look at first to get started
learning about how to do cortical thickness group analysis?
http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis
Thank you,
Jeff Sadino
> Date: Wed, 18 Feb 2009 19:25:21 -0500
> From: gr...@nmr.mgh.harvard.edu
> To: jsad...@hotmail.com
> CC: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] Group Cortical Thickness
>
> If this is just a thickness study, then you dont need fsfast. There are
> examples/tutorials of this type of analysis in the wiki. Look through
> that and see if you still have questions.
>
> doug
>
> Jeff Sadino wrote:
> > Hello,
> > I want to run group statistics on the cortical thickness for a study
> > with 3 groups, each with about 30 subjects. To do this, I need to
> > create an average cort thickness map for each group. We are
> > interested in basic statistics, so nothing too advanced. I am
> > wondering what would be the most efficient way to go about this. From
> > what I can tell, FsFast is the program used to do group analysis.
> > Would it be fastest to learn FsFast to process all my group data, or I
> > am thinking since we only need basic stats, it may be faster and
> > easier to register each subject's ?h.thickness file to an average
> > sphere and then load the registered thickness file into matlab to do
> > the stats? I think I would need to modify the commands from
> > auto-recon stage 3 to use the thickness file, for example:
> >
> > mris_sphere ?h.thickness ?h.thickness.sphere
> > mris_register <http://surfer.nmr.mgh.harvard.edu/fswiki/mris_register>
> > -curv ?h.sphere
> > $FREESURFER_HOME/average/?h.average.curvature.filled.buckner40.tif
> > ?h.thickness.sphere.reg
> > mris_jacobian <http://surfer.nmr.mgh.harvard.edu/fswiki/mris_jacobian>
> > ?h.white ?h.thickness.sphere.reg ?h.jacobian_white
> >
> > mrisp_paint <http://surfer.nmr.mgh.harvard.edu/fswiki/mrisp_paint> -a
> > 5 $FREESURFER_HOME/average/?h.average.curvature.filled.buckner40.tif#6
> > ?h.thickness.sphere.reg ?h.thickness.avg_curv
> >
> > We have a cluster, so the processing could be done fairly quickly.
> > Thank you in advance for your advice!
> >
> > Jeff Sadino
> >
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