> Date: Fri, 1 Nov 2013 08:45:35 -0400
> From: fischl@nmr.mgh.harvard.edu
> To: moonblue412@hotmail.com
> CC: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] How to generate histograms of intensities in one anatomical region?
>
> Hi Yue
>
> if you sample them on to the surface with mri_vol2surf you can use the
> overlay histogram facility in tksurfer to do what you want. You can also
> use mask_label to remove values outside of an ROI if that is what you are
> interested in.
>
> cheers
> Bruce
> On Fri, 1 Nov 2013, ?? wrote:
>
> > Hi All,
> > I have T1-weighted MPRAGE images and I run recon-all to generate surfaces
> > and labels in freesurfer. Then I would like to do statistical analysis in
> > the regions I am interested in. For example, I would like to generate a
> > histogram of intensities in frontal cortex or in occipital. I can display
> > these regions in different color in freeview based on the look-up table but
> > I don't know how to use them to generate histograms in freesurfer or create
> > binary masks then I can do the analysis with these masks in matlab. 
> >
> > I use freesurfer to do this because I see these beautiful color
> > segmentations. It would be really painful to manually create regional masks
> > for a group study. I am new to freesurfer and I really appreciate if someone
> > can point out a direction. 
> >
> > Thanks!
> >
> >
> > Best,
> > Yue
> >
> >
>
>
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