BetaMol: a Molecular Modeling, Analysis and Visualization Software Based on the Beta-complex and the Quasi-triangulation

Molecular shape is one of the most critical factors that determines molecular function. Therefore, it is frequently desirable to understand geometric characteristics of a molecule more precisely and efficiently. In this paper, we introduce the BetaMol, a molecular modeling, analysis, and visualization software based on the recent theory of the beta-complex and the quasi-triangulation that are derived from the Voronoi diagram of three-dimensional spherical atoms. The powerful features of the BetaMol are solely based on a unified, single framework of the mathematically rigorous and computationally efficient beta-complex theory. The BetaMol is implemented in the standard C++ language with OpenGL graphics library and freely available at Voronoi Diagram Research Center web site (http://voronoi.hanyang.ac.kr).This work was supported by the National Research Lab grant funded by the Ministryof Education, Science, and Technology, Korea (No. 2011-0020410). Deok-Soo Kim is thecorresponding author