| 查看: 1490 | 回复: 7 | ||
| 【奖励】 本帖被评价4次，作者wsgchem增加金币 2.5 个 | ||
| 当前主题已经存档。 | ||
| 当前只显示满足指定条件的回帖，点击这里查看本话题的所有回帖 | ||
[资源]
分子动力学计算软件NAMD
|
||
|
下载网址： http://www.ks.uiuc.edu/Developme ... gi?PackageName=NAMD 介绍： NAMD，用于在大规模并行计算机上快速模拟大分子体系的并行分子动力学代码。NAMD用经验力场，如Amber，CHARMM和Dreiding，通过数值求解运动方程计算原子轨迹。 【作者】 Theoretical and Computational Biophysics Group,University of Illinois at Urbana-Champaign (UIUC) 【语言版本】 English 【收费情况】 免费 【用途】 NAMD is a parallel, object-oriented molecular dynamics code designed for high-performance simulation of large biomolecular systems. NAMD scales to hundreds of processors on high-end parallel platforms and tens of processors on commodity clusters using switched fast ethernet. NAMD is file-compatible with AMBER, CHARMM, and X-PLOR and is distributed free of charge with source code. Current NAMD Feature Summary: Software Setup Free to download and use. (Redistribution prohibited.) Precompiled binaries provided for 12 popular platforms. Installed at major NSF supercomputer sites. Portable to virtually any platform with ethernet or MPI. C++ source code and CVS access for modification. Molecule Building Reads X-PLOR, CHARMM, AMBER, and GROMACS input files. Psfgen tool generates structure and coordinate files for CHARMM force field. Efficient conjugate gradient minimization. Fixed atoms and harmonic restraints. Thermal equilibration via periodic rescaling, reinitialization, or Langevin dynamics. Basic Simulation Constant temperature via rescaling, coupling, or Langevin dynamics. Constant pressure via Berendsen or Langevin Nose-Hoover methods. Particle mesh Ewald full electrostatics for periodic systems. Symplectic multiple timestep integration. Rigid waters and bonds to hydrogen atoms. Advanced Simulation Chemical and conformational free energy calculations. Locally enhanced sampling via multiple images. Tcl based scripting and steering forces. Interactive visual steering interface to VMD. Scalable Performance Based on the Charm++/Converse parallel runtime system. Spatial data decomposition for limited communication pattern. Message driven execution for latency tolerance on commodity networks. Measurement-based load balancing for scaling to hundreds of processors. Largest simulation to date is over 300,000 atoms on 1000 processors. 【相关链接】 美国伊利诺依大学：理论生物物理学研究组 |
回复此楼» 猜你喜欢
厦门大学侯旭团队招聘青年教师、博士后及博硕士研究生
已经有2人回复
-
哈工大深圳 表界面物理化学方向（胶体与界面，光谱探测研究） 博士招生
已经有0人回复
-
物理化学论文润色/翻译怎么收费?
已经有289人回复
-
元素硫的化合价和氧化态
已经有1人回复
-
江苏科技大学2026年招聘启事
已经有1人回复
-
International Journal of Nanoscience属于中科院4区吗？
已经有0人回复
-
微纳hub，微纳加工的宝库
已经有0人回复
-
微纳加工里的 lift-off 工艺
已经有0人回复
-
澳大利亚南昆士兰大学量子点课题组招收博士生
已经有0人回复
-
香港中文大学（深圳）2026年招聘公告
已经有0人回复
» 本主题相关商家推荐: (我也要在这里推广)
4楼2008-03-16 16:59:34
2楼2008-03-15 10:24:06
3楼2008-03-15 11:39:06
5楼2008-04-07 09:49:36
