Line Integral Convolution for Real-Time Illustration of Molecular Surface Shape and Salient Regions
We present a novel line drawing algorithm that illustrates surfaces in real‐time to convey their shape. We use line integral convolution (LIC) and employ ambient occlusion for illustrative surface rendering. Furthermore, our method depicts salient regions based on the illumination gradient. Our meth...
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| Vydané v: | Computer graphics forum Ročník 33; číslo 3; s. 181 - 190 |
|---|---|
| Hlavní autori: | , , , |
| Médium: | Journal Article |
| Jazyk: | English |
| Vydavateľské údaje: |
Oxford
Blackwell Publishing Ltd
01.06.2014
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| ISSN: | 0167-7055, 1467-8659 |
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| Abstract | We present a novel line drawing algorithm that illustrates surfaces in real‐time to convey their shape. We use line integral convolution (LIC) and employ ambient occlusion for illustrative surface rendering. Furthermore, our method depicts salient regions based on the illumination gradient. Our method works on animated surfaces in a frame‐coherent manner. Therefore, it yields an illustrative representation of time‐dependent surfaces as no preprocessing step is needed. In this paper, the method is used to highlight the structure of molecular surfaces and to illustrate important surface features like cavities, channels, and pockets. The benefit of our method was evaluated with domain experts. We also demonstrate the applicability of our method to medical visualization. |
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| AbstractList | We present a novel line drawing algorithm that illustrates surfaces in real‐time to convey their shape. We use line integral convolution (LIC) and employ ambient occlusion for illustrative surface rendering. Furthermore, our method depicts salient regions based on the illumination gradient. Our method works on animated surfaces in a frame‐coherent manner. Therefore, it yields an illustrative representation of time‐dependent surfaces as no preprocessing step is needed. In this paper, the method is used to highlight the structure of molecular surfaces and to illustrate important surface features like cavities, channels, and pockets. The benefit of our method was evaluated with domain experts. We also demonstrate the applicability of our method to medical visualization. We present a novel line drawing algorithm that illustrates surfaces in real-time to convey their shape. We use line integral convolution (LIC) and employ ambient occlusion for illustrative surface rendering. Furthermore, our method depicts salient regions based on the illumination gradient. Our method works on animated surfaces in a frame-coherent manner. Therefore, it yields an illustrative representation of time-dependent surfaces as no preprocessing step is needed. In this paper, the method is used to highlight the structure of molecular surfaces and to illustrate important surface features like cavities, channels, and pockets. The benefit of our method was evaluated with domain experts. We also demonstrate the applicability of our method to medical visualization. [PUBLICATION ABSTRACT] |
| Author | Ertl, Thomas Lawonn, Kai Krone, Michael Preim, Bernhard |
| Author_xml | – sequence: 1 givenname: Kai surname: Lawonn fullname: Lawonn, Kai organization: Department of Simulation and Graphics, University of Magdeburg, Germany – sequence: 2 givenname: Michael surname: Krone fullname: Krone, Michael organization: Visualization Research Center (VISUS), University of Stuttgart, Germany – sequence: 3 givenname: Thomas surname: Ertl fullname: Ertl, Thomas organization: Visualization Research Center (VISUS), University of Stuttgart, Germany – sequence: 4 givenname: Bernhard surname: Preim fullname: Preim, Bernhard organization: Department of Simulation and Graphics, University of Magdeburg, Germany |
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| References_xml | – reference: Muthukrishnan R., Radha M.: Edge detection techniques for image segmentation. IJCSIT 3, 6 (2011). 3 – reference: Chavent M., Lévy B., Krone M., Bidmon K., Nominé J.-P., Ertl T., Baaden M.: GPU-powered tools boost molecular visualization. Brief. Bioinform. 12, 6 (2011), 689-701. 3 – reference: Senthilkumaran N., Rajesh R.: Edge detection techniques for image segmentation - a survey of soft computing approaches. IJRTE 1, 2 (2009). 3 – reference: Falk M., Krone M., Ertl T.: Atomistic visualization of mesoscopic whole-cell simulations using ray-casted instancing. Comp. Graph. Forum 32, 8 (2013), 195-206. 3 – reference: Richards F.M.: Areas, volumes, packing, and protein structure. Annu. Rev Biophys. Bio. 6, 1 (1977), 151-176. 2 – reference: Krone M., Bidmon K., Ertl T.: Interactive visualization of molecular surface dynamics. IEEE TVCG 15, 6 (2009), 1391-1398. 2 – reference: Xie X., He Y., Tian F., Seah H.-S., Gu X., Qin H.: An effective illustrative visualization framework based on photic extremum lines. IEEE TVCG 13 (2007), 1328-1335. 3 – reference: Viola I.: Importance-Driven Expressive Visualization. PhD thesis, Institute of Computer Graphics and Algorithms, Vienna University of Technology, June 2005. 1 – reference: Canny J.: A computational approach to edge detection. IEEE Trans. Pattern Anal. Mach. Intell. 8, 6 (June 1986), 679-698. 3 – reference: Botsch M., Kobbelt L., Pauly M., Alliez P., uno Levy B.: Polygon Mesh Processing. AK Peters, 2010. 3 – reference: Berman H.M., Westbrook J., Feng Z., Gilliland G., Bhat T.N., Weissig H., Shindyalov I.N., Bourne P.E.: The protein data bank. Nucleic Acids Res 28 (2000), 235-242. URL: http://www.pdb.org. 3, 7 – reference: Goodsell D.S., Olson A.J.: Molecular illustration in black and white. J Mol Graph 10 (1992), 235-240. 2 – reference: Kim Y., Yu J., Yu X., Lee S.: Line-art illustration of dynamic and specular surfaces. vol. 27, pp. 156:1-156:10. 3 – reference: Zander J., Isenberg T., Schlechtweg S., Strothotte T.: High quality hatching. Comp. Graph. Forum 23, 3 (2004), 421-430. 3, 6 – reference: Sanner M.F., Olson A.J., Spehner J.-C.: Reduced Surface: An efficient way to compute molecular surfaces. Biopolymers 38, 3 (1996), 305-320. 7 – reference: Luft T., Colditz C., Deussen O.: Image enhancement by unsharp masking the depth buffer. ACM Transactions on Graphics 25, 3 (2006), 1206-1213. 2 – reference: Tarini M., Cignoni P., Montani C.: Ambient occlusion and edge cueing for enhancing real time molecular visualization. IEEE TVCG 12, 5 (2006), 1237-1244. 2, 4 – reference: Krone M., Stone J.E., Ertl T., Schulten K.: Fast visualization of gaussian density surfaces for molecular dynamics and particle system trajectories. In EG EuroVis 2012 Short Papers (2012), vol. 1, pp. 67-71. 7 – reference: Lampe O.D., Viola I., Reuter N., Hauser H.: Two-level approach to efficient visualization of protein dynamics. IEEE TVCG 13, 6 (2007), 1616-1623. 2 – reference: Lipsa D.R., Laramee R.S., Cox S.J., Roberts J.C., Walker R., Borkin M., Pfister H.: Visualization for the physical sciences. Comp. Graph. Forum 31, 8 (2012), 2317-2347. 3 – reference: Zhang L., He Y., Xia J., Xie X., Chen W.: Real-time shape illustration using laplacian lines. IEEE TVCG 17 (2011), 993-1006. 3 – reference: Falk M., Weiskopf D.: Output-sensitive 3d line integral convolution. IEEE TVCG 14, 4 (2008), 820-834. 2 – reference: Humphrey W., Dalke A., Schulten K.: VMD - Visual Molecular Dynamics. J Mol Graph 14 (1996), 33-38. 7 – reference: van der Zwan M., Lueks W., Bekker H., Isenberg T.: Illustrative molecular visualization with continuous abstraction. Comp. Graph. Forum 30, 3 (2011), 683-690. 2 – reference: O'Donoghue S.I., Goodsell D.S., Frangakis A.S., Jossinet F., Laskowski R.A., Nilges M., Saibil H.R., Schafferhans A., Wade R.C., Westhof E., Olson A.J.: Visualization of macromolecular structures. Nature methods 7, 3 Suppl (2010). 3 – start-page: 321 year: 2013 end-page: 330 – year: 2009 – volume: 6 start-page: 151 issue: 1 year: 1977 end-page: 176 article-title: Areas, volumes, packing, and protein structure publication-title: Annu. Rev Biophys. Bio. – start-page: 517 year: 2000 end-page: 526 – volume: 27 start-page: 156 publication-title: Line‐art illustration of dynamic and specular surfaces – volume: 38 start-page: 305 issue: 3 year: 1996 end-page: 320 article-title: Reduced Surface: An efficient way to compute molecular surfaces publication-title: Biopolymers – volume: 12 start-page: 1237 issue: 5 year: 2006 end-page: 1244 article-title: Ambient occlusion and edge cueing for enhancing real time molecular visualization publication-title: IEEE TVCG – year: 2005 – start-page: 45 year: 1998 end-page: 56 – start-page: 52 year: 1995 end-page: 59 – volume: 1 issue: 2 year: 2009 article-title: Edge detection techniques for image segmentation – a survey of soft computing approaches publication-title: IJRTE – start-page: 37 year: 2006 end-page: 45 – volume: 15 start-page: 1391 issue: 6 year: 2009 end-page: 1398 article-title: Interactive visualization of molecular surface dynamics publication-title: IEEE TVCG – start-page: 251 year: 2013 end-page: 260 – start-page: 137 year: 2012 end-page: 144 – volume: 32 start-page: 195 issue: 8 year: 2013 end-page: 206 article-title: Atomistic visualization of mesoscopic whole‐cell simulations using ray‐casted instancing publication-title: Comp. Graph. Forum – start-page: 157 year: 2008 – volume: 25 start-page: 1206 issue: 3 year: 2006 end-page: 1213 article-title: Image enhancement by unsharp masking the depth buffer publication-title: ACM Transactions on Graphics – start-page: 249 year: 1995 end-page: 256 – start-page: 303 year: 2005 end-page: 310 – volume: 3 issue: 6 year: 2011 article-title: Edge detection techniques for image segmentation publication-title: IJCSIT – volume: 30 start-page: 683 issue: 3 year: 2011 end-page: 690 article-title: Illustrative molecular visualization with continuous abstraction publication-title: Comp. Graph. Forum – volume: 28 start-page: 235 year: 2000 end-page: 242 article-title: The protein data bank publication-title: Nucleic Acids Res – start-page: 39 year: 2008 – volume: 17 start-page: 993 year: 2011 end-page: 1006 article-title: Real‐time shape illustration using laplacian lines publication-title: IEEE TVCG – year: 2010 – start-page: 35 year: 2002 end-page: 57 – start-page: 848 year: 2003 end-page: 855 – volume: 14 start-page: 33 year: 1996 end-page: 38 article-title: VMD – Visual Molecular Dynamics publication-title: J Mol Graph – start-page: 113 year: 2013 end-page: 120 – volume: 7 issue: 3 year: 2010 article-title: Visualization of macromolecular structures publication-title: Nature methods – volume: 23 start-page: 421 issue: 3 year: 2004 end-page: 430 article-title: High quality hatching publication-title: Comp. Graph. 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| SubjectTerms | Algorithms Analysis Categories and Subject Descriptors (according to ACM CCS) Channels Computer graphics Convolution I.3.3 [Computer Graphics]: Picture/Image Generation-Line and curve generation Illumination Image processing systems Integrals Medical imaging Molecular structure Real time Rendering Studies |
| Title | Line Integral Convolution for Real-Time Illustration of Molecular Surface Shape and Salient Regions |
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