MOLECULAR MODELING PROGRAM NAMD

VMD是由资源和资源开发的可视化程序 设计用于生物分子系统的交互显示和分析 [13]。该程序具有动画、操作和分析功能 蛋白质、核酸、脂膜和其他生物 分子。它支持OpenGL和SGI GL图形库 立体声显示。此外，VMD支持VRML的输出格式 (虚拟现实建模语言)和许多流行的渲染器 (光线着色、POV-Ray和Raster3D)。VMD可以读取许多不同的文件 直接和通过与程序Babel[58]的接口进行格式化。 呈现和着色分子的各种方法 VMD提供的模型包括VDW、甘草、卡通和表面模型。 动画信息可以来自轨迹文件或通过连接 到运行的模拟程序，例如NAMD[19，59]。VMD 脚本语言基于TCL/Tk。它可以用来查询 分子信息，执行分析并显示结果 交互地，为实现新方法提供了强大的基础 在结构可视化和分析方面。进一步的方法 开发时，完整的C++源代码可以免费提供给 生物医学社区，以及使用和修改的文档 这个项目。VMD 1.2版可以在大多数Unix版本上运行， 包括IRIX、Linux和Solaris，并将很快移植到Windows 新界别。有关更多信息，请参阅VMD主页。*

VMD is a visualization program developed by the Resource and designed for interactive display and analysis of biomolecular systems [13]. The program is capable of animation, manipulation and analysis of proteins, nucleic acids, lipid membranes and other biological molecules. It supports OpenGL and SGI GL graphics libraries with stereo displays. Moreover, VMD supports output formats for VRML (Virtual Reality Modeling Language) and many popular renderers (RayShade, POV-Ray and Raster3D). VMD can read many different file formats directly and through an interface with the program Babel [58]. The wide variety of methods for rendering and coloring molecules offered by VMD includes VdW, licorice, cartoon and surface models. Animation information can come from a trajectory file or by connecting to a running simulation program, such as NAMD [19, 59]. The VMD scripting language is based on TCL/TK. It may be used to query molecular information, perform analysis and display the res ults interactively, yielding a powerful base for implementing new methods in structure visualization and analysis. To further method development, the complete C++ source code is freely available to the biomedical community, along with documentation for using and modifying the program. Version 1.2 of VMD runs under most versions of Unix, including IRIX, Linux and Solaris, and will soon be ported to Windows NT. See the VMD home page for more information.*