News Archive

[August 01 2010] MCX v0.4.9 is released

It is my great pleasure to announce the availability of a new beta release, v0.4.9, of Monte Carlo eXtreme (MCX) - a GPU-accelerated Monte Carlo 3D photon transport simulator (URL: Please read the release notes and the detailed Change Log/SVN history. The pre-compiled binaries for Linux/Windows can be accessed via the download page.

[July 25 2010] Collins adult brain atlas FEM mesh for download

I would like to share the human brain atlas FEM mesh I generated for a recent paper to researchers in the fields of neoroscience and imaging. The mesh data is now released in the public domain. You can download it from this page. The mesh contains 69865 nodes, 425224 tetrahedral elements and 4 tissue types. The "Sphere-Diffusion" toolbox is also available for download.

[July 22 2010] Image Guided Spectroscopy Symposium

Just returned from a wonderful symposium organized by Dartmouth NIRFAST team. I presented iso2mesh as an open-source meshing option. You can download my slides from here (PDF, 4.6MB).

[July 16 2010] Prior-guided image reconstruction

Just one day later, another paper submitted to Biomedical Optics Express was also published online(PDF, HTML). In this paper, we report a structural-prior-guided image reconstruction algorithm, combining a gray-scale tissue anatomy in a diffuse optical imaging reconstruction to improve image resolution and robustness.

[July 15 2010] Mesh-based Monte Carlo

A paper on a mesh-based Monte Carlo algorithm was accepted by Biomedical Optics Express and published online (PDF,HTML) today. The HTML-formatted full-text of the paper looks awesome. Glad to see that MathML is used to display all the equations!

The software will be released in the next a few days at MMC homepage at after a few more touches to the documentation.

[July 14 2010] iso2mesh toolbox 1.0beta is released

Iso2mesh 1.0-beta (aka 0.9.8) is now released! It has been over a year since the previous release and the new software contains numerous updates and additions. Please download the new version from this page.

[June 06 2010] Converting a closed surface to a volumetric image

A missing link, surf2vol, in the iso2mesh roadmap is finally added. This may enable a number of new path-ways as the meshing pipeline is now a close-circuit. A possible one would be to remove self-intersecting elements by remeshing the surf2vol output.

[May 30 2010] Matlab Toolbox for the Analytical Diffusion/Helmholtz Solutions of a Sphere

The "Sphere-Diffusion" toolbox solves for the analytical solutions for the diffusion inside and outside a sphere. The solutions are defined in the 3D space on a user specified grid; the sphere can have different absorption/scattering/refractive index to the background media. This toolbox can be useful when evaluating new algorithms in the heterogeneous media.

You can find more details by clicking this link.

[May 14 2010] MCX benchmarked on GTX 470

MCX was recently benchmarked on a GTX 470 card and had achieved a speed of 12800 photons/millisecond using over 40000 threads and a block size of 512. This is 4x faster than the results with 8800GT.

[May 10 2010] New demo added to iso2mesh

iso2mesh now supports mesh refinement by exploiting the existing features from tetgen (thanks to Hang Si, the author of tetgen). See this page for a demo (the demo also shows how to create spheres from iso2mesh). Please check out the latest code from SVN to give it a try.

[Apr 11 2010] OSA talks

Slides for the two talks at OSA BIOMED conference (warning: all the GIF and ppt animations are not available in the PDF file):

[Feb 13 2010] Chinese new year (year of tiger)

With the recently implemented JSONP support in the Habitat engine, I was finally able to build a "live" research homepage from the read-only center web space . Some of the "old" news in the past year are posted below.

[Jan 26 2010] GPU Ocelot support added to MCX

Ocelot is an open-source PTX emulator developed by Greg Diamos and his colleagues. A makefile is added to MCX SVN to enable linking against libocelot and execution on CPU. Unfortunately, Ocelot emulation is very slow, this is expected to be improved significantly by the coming PTX-LLVM translator.

[Dec 22 2009] MCX 0.2 final is released

The GPU-accelerated open-source Monte Carlo simulation software, Monte Carlo eXtreme (MCX), v0.2 final is now released. Pre-compiled binaries for multiple platforms as well as the full source code can be downloaded from here. The major updates include an addition of a cross-platform GUI tool for MCX.

[Oct 21 2009] MCX 0.2 beta released with paper accessible online

Monte Carlo eXtreme (MCX), v0.2 beta, is released for Linux (32/64bit), Windows and Mac OS. The full paper describing this work is now a featured article on the Optics Express website.

[Jul 01 2009] iso2mesh work presented at IEEE ISBI

I presented a poster(PDF 2.5M) at ISBI'2009 and gave an introduction to the open-source iso2mesh 3D mesh generator. More details can be found in this short paper. Thanks to CGAL and a few other developers for their awesome software enabling this toolbox.