> Date: Mon, 12 Mar 2012 11:38:07 -0400
> From: greve@nmr.mgh.harvard.edu
> To: dusanhirjak@hotmail.com
> CC: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] Cluster-Size in Qdec
>
> In this case, the input file would be the sig.mgh file that you want to
> extract clusters from. For this, you would not use a csd file (which is
> created by the simulation, unless you want to exclude clusters based on
> their p-values instead of size). You would set the --thmin to set the
> voxel-wise threshold. You would also set --minarea to exclude clusters
> smaller than a certain size.
> doug
>
> Dusan Hirjak wrote:
> > Dear Freesurfer experts,
> >
> > after a partial correlation (cortical thickness in different brain
> > regions of 24 Subjects correalted with socres on different
> > neuropsychological scales) I tried to define the minimal and maximal
> > cluster size in Qdec in order to show only the largest effects.
> > I run "mri_surfcluster" and other commands described on
> > http://surfer.nmr.mgh.harvard.edu/fswiki/mri_surfcluster. Unfortunately,
> > it did not work. Should I use all the command lines? What is exactly
> > meant by "inputfile" and "csd csdfile"? I guess my inputfile should be
> > the "table.dat" File and T1-weighted images of all 24 Subjects...?
> >
> > Thanks in advance!
> >
> > Dusan
> >
> >
> > > Date: Wed, 7 Mar 2012 16:34:02 -0500
> > > From: greve@nmr.mgh.harvard.edu
> > > To: dusanhirjak@hotmail.com
> > > CC: freesurfer@nmr.mgh.harvard.edu
> > > Subject: Re: [Freesurfer] Cluster-Size in Qdec
> > >
> > > I don't think tthere is a way in qdec to define either. You can run
> > > mri_surfcluster externally to remove clusters under a certain size.
> > With
> > > a few tricks you can remove the ones over a certain size too.
> > > doug
> > >
> > > Dusan Hirjak wrote:
> > > > > >
> > > > I am a beginner in using Freesurfer. I did an explorative study
> > > > where I correlated cotical thickness with different
> > neuropsychological
> > > > parameters: I found positive correlations between cortical thickness
> > > > and higher scores on different neuropsychological scales in different
> > > > brain regions. However, some of these brain regions (clusters) with
> > > > cortical thinning are only covering a very small surface area (blue
> > > > color). I was now wondering if there is a possibility in Qdec to
> > > > manually define the minimal and maximal cluster size, which I want to
> > > > show?
> > > > Thanks in advance!
> > > > Dusan
> > > >
> > ------------------------------------------------------------------------
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> > >
> > > --
> > > Douglas N. Greve, Ph.D.
> > > MGH-NMR Center
> > > greve@nmr.mgh.harvard.edu
> > > Phone Number: 617-724-2358
> > > Fax: 617-726-7422
> > >
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> > >
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> --
> Douglas N. Greve, Ph.D.
> MGH-NMR Center
> greve@nmr.mgh.harvard.edu
> Phone Number: 617-724-2358
> Fax: 617-726-7422
>
> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
> FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
>