Thanks all.

The reason to use start FreeSurfer within Matlab would be to, for example, build a kind of integrated GUI able to accomplish DICOM -> Surface Visualization. But, for my case, its not that necessary; running FreeSurfer externally is acceptable.

Thanks again for your help,

Raghav

On 02/01/2010 03:34 PM, Thomas Yeo wrote:

To visualize surfaces, I usually use the matlab function "trisurf"

--Thomas

On Feb 1, 2010, at 3:27 PM, Bruce Fischl wrote:

...

Hi Raghav,

yes, people have done visualization of surfaces in matlab, maybe Thomas (ccd) can comment. As for 2, I'm not sure I understand what you mean. Why would you need to run freesurfer from within matlab? I guess you could use eval to run recon-all if you had to, but I wouldn't think you would need to.

cheers Bruce

On Mon, 1 Feb 2010, Raghav Puranmalka wrote:

...

Hi all,

I am working on a project that aims to:

(1) Use an MRI image, skullstrip and convert the brain volume to a surface

(2) Import that surface onto Matlab and visualize it there.

(3) On top of that surface in Matlab, add pictures of electrodes as well as 3D "heat maps" of neural activity.

It seems that FreeSurfer may be an option for me. I have a few questions that I have been unable to find the answers to:

(1) Can one visualize the surface created by FreeSurface in Matlab? If so, would somebody be able to point me to the documentation?

(2) Can one start the freesurfer from Matlab? It seems that the matlab files that come with freesurfer are more for reading and writing data rather than using/starting the freesurfer binaries.

Thanks for your help!

Best,

Raghav Raghav Puranmalka Candidate B.S. Engineering | Major: Bioengineering Candidate M.S. Engineering | Major: Bioengineering SEAS | University of Pennsylvania raghav.puranmalka@gmail.com _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer