A parameter-free, solid-angle based, nearest-neighbor algorithm

被引:90
|
作者
van Meel, Jacobus A. [1 ]
Filion, Laura [2 ]
Valeriani, Chantal [3 ,4 ]
Frenkel, Daan [2 ]
机构
[1] FOM Inst Atom & Mol Phys, Sci Pk 104, NL-1098 XG Amsterdam, Netherlands
[2] Univ Cambridge, Dept Chem, Cambridge CB2 1EW, England
[3] Univ Edinburgh, Sch Phys & Astron, SUPA, Edinburgh EH9 3JZ, Midlothian, Scotland
[4] Univ Complutense Madrid, Fac Quim, Dept Quim Fis, E-28040 Madrid, Spain
来源
JOURNAL OF CHEMICAL PHYSICS | 2012年 / 136卷 / 23期
基金
欧洲研究理事会; 英国工程与自然科学研究理事会;
关键词
CRYSTAL NUCLEATION; VORONOI; CRYSTALLIZATION; LIQUIDS; ORDER; MODEL;
D O I
10.1063/1.4729313
中图分类号
O64 [物理化学(理论化学)、化学物理学];
学科分类号
070304 ; 081704 ;
摘要
We propose a parameter-free algorithm for the identification of nearest neighbors. The algorithm is very easy to use and has a number of advantages over existing algorithms to identify nearest-neighbors. This solid-angle based nearest-neighbor algorithm (SANN) attributes to each possible neighbor a solid angle and determines the cutoff radius by the requirement that the sum of the solid angles is 4 pi. The algorithm can be used to analyze 3D images, both from experiments as well as theory, and as the algorithm has a low computational cost, it can also be used "on the fly" in simulations. In this paper, we describe the SANN algorithm, discuss its properties, and compare it to both a fixed-distance cutoff algorithm and to a Voronoi construction by analyzing its behavior in bulk phases of systems of carbon atoms, Lennard-Jones particles and hard spheres as well as in Lennard-Jones systems with liquid-crystal and liquid-vapor interfaces. (C) 2012 American Institute of Physics. [http://dx.doi.org/10.1063/1.4729313]
引用
收藏
页数:12
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