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BioRay: Real-Time Ray Tracing and Volume Rendering in Bioinformatics

Images rendered interactively using our system:
molecular viewer BALLView powered by real-time ray tracing library RTfact

About

In this project we research the applications of real-time ray tracing and volume rendering in the bioinformatics domain. We are working on the visualization of proteins (cartoon models, surfaces), their properties (electrostatic potential) and related organisms (viral cryo-EM maps). Besides visualization itself, we also aim at applying ray tracing to non-visualization tasks where ray tracing serves as a general sampling algorithm.

Our primary platform is the molecular viewer and modeling tool BALLView coupled with real-time ray tracing library RTfact. On one side we use a set of advanced techniques on the CPU, like packet and frustum tracing, building from hierarchies, vectorization, and generic programming to achieve interactivity even on large (multi-million) and dynamic polygonal scenes. On the other hand, we employ advanced GPU-based volume ray tracer to deal with non-polygonal volumetric and procedural datasets in real-time.

Contact

Lukas Marsalek
Email: marsalek at cs dot uni-saarland dot de
Tel: +49 681 302 3836
URL: http://graphics.cs.uni-saarland.de/marsalek/

BioRay in Action!

Do you want to see BioRay in action? Check out our latest video!

Jobs & Theses

Thank you for you interest. Currently, our capacities are filled. Still, if you are interested in HiWi position or have an interesting related idea for Master or Bachelor thesis, don't be shy and contact us at marsalek at cs dot uni-saarland dot de

 

Publications

Want to know more? Check the links at the titles of the publications! They will lead you to images & pdfs!

References

Contributions to proceedings:

6.
Lukas Marsalek, Iliyan Georgiev, Anna Katharina Dehof, Hans-Peter Lenhof, Philipp Slusallek and Andreas Hildebrandt
Real-Time Ray Tracing of Complex Molecular Scenes
14th International Conference on Information Visualisation (IV) , page 239--245.
London
July 2010
ISBN: 978-1-4244-7846-0
5.
Mike Phillips, Anna Katharina Dehof, Iliyan Georgiev, Stefan Nickels, Lukas Marsalek, Hans-Peter Lenhof, Andreas Hildebrandt and Philipp Slusallek
Measuring Properties of Molecular Surfaces Using Ray Casting
Proceedings of 9th International Workshop on High Performance Computational Biology , page 1--7.
April 2010
ISBN: 978-1-4244-6533-0

Posters:

4.
Lukas Marsalek, Anna Katharina Dehof, Iliyan Georgiev, Daniel Stöckel, Stefan Nickels, Hans-Peter Lenhof, Philipp Slusallek and Andreas Hildebrandt
Real-Time Ray Tracing and Volume Rendering in Molecular Visualization
EMBO Workshop on Visualizing Biological Data (VizBi)
2010

Note: Best Poster Award Nominee

3.
Anna Katharina Dehof, Lukas Marsalek, Iliyan Georgiev, Daniel Stöckel, Stefan Nickels, Hans-Peter Lenhof, Philipp Slusallek and Andreas Hildebrandt
Interactive Real-Time Ray Tracing in Molecular Visualization
Poster, German Conference on Bioinformatics (GCB)
2009

Note: Best Poster Award Winner

2.
Anna Dehof, Iliyan Georgiev, Lukas Marsalek, Daniel Stöckel, Stefan Nickels, Hans-Peter Lenhof, Philipp Slusallek and Andreas Hildebrandt
Real-time ray tracing of complex molecular scenes with BALLView and RTfact
Poster, ISBM/ECCB Stockholm
2009
1.
Lukas Marsalek, Stefan Nickels, Anna Dehof, Hans-Peter Lenhof, Philipp Slusallek and Andreas Hildebrandt
Real-Time Volume Ray Tracing For Bioinformatics Applications
Poster, ISBM/ECCB Stockholm
2009