Literature DB >> 19763233

AUTOMATIC GENERATION OF FFT FOR TRANSLATIONS OF MULTIPOLE EXPANSIONS IN SPHERICAL HARMONICS.

Jakub Kurzak1, Dragan Mirkovic, B Montgomery Pettitt, S Lennart Johnsson.   

Abstract

The fast multipole method (FMM) is an efficient algorithm for calculating electrostatic interactions in molecular simulations and a promising alternative to Ewald summation methods. Translation of multipole expansion in spherical harmonics is the most important operation of the fast multipole method and the fast Fourier transform (FFT) acceleration of this operation is among the fastest methods of improving its performance. The technique relies on highly optimized implementation of fast Fourier transform routines for the desired expansion sizes, which need to incorporate the knowledge of symmetries and zero elements in the input arrays. Here a method is presented for automatic generation of such, highly optimized, routines.

Year:  2008        PMID: 19763233      PMCID: PMC2744990          DOI: 10.1177/1094342008090915

Source DB:  PubMed          Journal:  Int J High Perform Comput Appl        ISSN: 1094-3420            Impact factor:   1.942


  1 in total

1.  Fast multipole methods for particle dynamics.

Authors:  J Kurzak; B M Pettitt
Journal:  Mol Simul       Date:  2006       Impact factor: 2.178

  1 in total
  1 in total

Review 1.  Classical electrostatics for biomolecular simulations.

Authors:  G Andrés Cisneros; Mikko Karttunen; Pengyu Ren; Celeste Sagui
Journal:  Chem Rev       Date:  2013-08-27       Impact factor: 60.622

  1 in total

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