Hi Mike, That looks awesome! Thank you very much for your help, I can’t wait to test it.

Markus

Am 02.04.2019 um 17:36 schrieb Angstadt, Mike mangstad@med.umich.edu:

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I've also done a brain print in color using Shapeways. There are probably a number of ways to do it, but what ended up working for me is up on my github at https://github.com/mangstad/freesurfer_to_3dprint

This uses freesurfer utilities to output the mesh to a more usable format, then creates per vertex color information from an annotation file and then runs a few modifications/fixes (reducing number of faces and some other stuff) and then outputs into an x3d file with color information.

A lot of trial an error was involved, and some things that should have worked didn't seem to for some reason, either errors on how I was handling the format or problems with getting Shapeways to recognize the format with color, etc.

-Mike ________________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Tim Schäfer ts+ml@rcmd.org Sent: Tuesday, April 2, 2019 10:37:21 AM To: Freesurfer support list Subject: Re: [Freesurfer] Colourful Brain

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This depends on the 3D model formats that your 3D printer will accept, and of course what you want the colors to be (e.g., it could be different brain regions according to some atlas, or a colormap of some cortical measurement like the curvature at that point of the brain surface).

Maybe there is an easier way that somebody else on this list knows, but I have written an exporter that can write a FreeSurfer brain mesh and the respective morphometry data to a vertex-colored PLY (Stanford format) mesh file.

You could use it and then use standard modeling software like Blender to load that format and export it to a variety of other formats. Maybe you will have to reduce the mesh resolution in Blender before printing, or use a low-poly version from the start for 3D printing (?). You will know better than me. ;)

Afaik there already is an easy way to convert the Freesurfer mesh files to OBJ format, but I found no way to make it use vertex colors (which makes some sense, since OBJ seems to have no official support for that).

If you are interested in the exporter, just let me know. It's open source. You can see an example for a model with vertex colors that I exported to PLY and then loaded into Blender here: https://vimeo.com/325645975

In that video, the color is rather uninteresting (it's the surface area at each vertex), but you can see that it works.

Best,

Tim

-- Dr. Tim Schäfer Postdoc Computational Neuroimaging Department of Child and Adolescent Psychiatry, Psychosomatics and Psychotherapy University Hospital Frankfurt, Goethe University Frankfurt am Main, Germany

...

On April 2, 2019 at 3:43 PM "May, Markus" MMAY@mgh.harvard.edu wrote:

Hi, My university has a new FDM 3D printer which is able to print colours. They want to print a brain in colour or maybe in multiple colours. Is there anybody who knows how I could get it?

Best, Markus ————————————

With best regards, M.Eng. Markus May

Ph.D. Student at Technische Hochschule Mittelhessen - University of Applied Sciences

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