Re: [Freesurfer] probability maps

you can do something like

a = MRIread('map1.mgz');

b = MRIread('map2.mgz');

c = MRIread('map3.mgz');

d = (a.vol > thresh + b.vol > thresh + d.vol> thresh)/3;

[mm ii] = max(d);

Then the vertex number will be ii-1 (need to convert from 1-based to 0-based)

On 5/15/17 3:34 PM, Trisanna Sprung-Much wrote:

Hi Bruce

The maps are .mgz format and are % overlap (across 40 subjects). They were generated using

-labels turned into surface overlay using mri_vol2surf -then registered to fsaverage using mri_surf2surf -then averaged within fsaverage space using mri_concat and then mris_fwhm to smooth.

Best Trisanna

-- Ph.D. Candidate McGill University Integrated Program in Neuroscience Psychology

On Mon, May 15, 2017 at 2:53 PM, Bruce Fischl <fischl@nmr.mgh.harvard.edu mailto:fischl@nmr.mgh.harvard.edu> wrote:

what format is your map of p-values in?
On Mon, 15 May 2017, Trisanna
Sprung-Much wrote:

> Hi Bruce
> I would not know where to start (not an avid matlab user) - what
input would
> be needed to be fed into matlab?
>
> Trisanna
>
> --
> Ph.D. CandidateMcGill University
> Integrated Program in Neuroscience
> Psychology
>
>
> On Mon, May 15, 2017 at 12:52 PM, Bruce Fischl
<fischl@nmr.mgh.harvard.edu <mailto:fischl@nmr.mgh.harvard.edu>>
> wrote:
>       hmmm, should be pretty easy in matlab, no?
>       On Mon, 15 May 2017, Trisanna
>       Sprung-Much wrote:
>
>       > Hi there
>       > I have generated some anatomical probabilistic maps as
>       overlays on the
>       > fsaverage pial surface. Is there a way to automatically find
>       the vertex
>       > coordinates of the vertex with the highest probability of
>       overlap? Or does
>       > this have to be done manually in Freeview?
>       >
>       > Many thanks
>       >
>       > Trisanna
>       > --
>       > Ph.D. CandidateMcGill University
>       > Integrated Program in Neuroscience
>       > Psychology
>       >
>       >
>       >
>       >
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