Approximating the large sparse matrix exponential using incomplete orthogonalization and Krylov subspaces of variable dimension

被引:16
作者
Vo, Huy D. [1 ]
Sidje, Roger B. [1 ]
机构
[1] Univ Alabama, Dept Math, Tuscaloosa, AL 35487 USA
基金
美国国家科学基金会;
关键词
matrix exponential; incomplete orthogonalization; adaptive Krylov method; variable dimension; SYSTEMS;
D O I
10.1002/nla.2090
中图分类号
O29 [应用数学];
学科分类号
070104 ;
摘要
Krylov subspace approximations to the matrix exponential are popularly used with full orthogonalization instead of incomplete orthogonalization, even though the latter strategy is known to reduce the cost by truncating the recurrences of the modified Gram-Schmidt process. This study combines such a strategy with an adaptive step-by-step integration scheme that allows both the stepsize and the dimension of the Krylov subspace to vary. A convergence analysis is done. Numerical results on test problems drawn from systems biology and computer systems show a significant speedup over the standard implementation with full orthogonalization and fixed dimension.
引用
收藏
页数:13
相关论文
共 30 条
[1]   COMPUTING THE ACTION OF THE MATRIX EXPONENTIAL, WITH AN APPLICATION TO EXPONENTIAL INTEGRATORS [J].
Al-Mohy, Awad H. ;
Higham, Nicholas J. .
SIAM JOURNAL ON SCIENTIFIC COMPUTING, 2011, 33 (02) :488-511
[2]   Inexact matrix-vector products in Krylov methods for solving linear systems:: A relaxation strategy [J].
Bouras, A ;
Frayssé, V .
SIAM JOURNAL ON MATRIX ANALYSIS AND APPLICATIONS, 2005, 26 (03) :660-678
[3]  
Burrage K., 2006, 150th Markov Anniversary Meeting, Boson Books, P21
[4]   Analysis of inexact Krylov subspace methods for approximating the matrix exponential [J].
Dinh, Khanh N. ;
Sidje, Roger B. .
MATHEMATICS AND COMPUTERS IN SIMULATION, 2017, 138 :1-13
[5]   A restarted Krylov subspace method for the evaluation of matrix functions [J].
Eiermann, Michael ;
Ernst, Oliver G. .
SIAM JOURNAL ON NUMERICAL ANALYSIS, 2006, 44 (06) :2481-2504
[6]   Efficient descriptor-vector multiplications in stochastic automata networks [J].
Fernandes, P ;
Plateau, B .
JOURNAL OF THE ACM, 1998, 45 (03) :381-414
[7]   Construction of a genetic toggle switch in Escherichia coli [J].
Gardner, TS ;
Cantor, CR ;
Collins, JJ .
NATURE, 2000, 403 (6767) :339-342
[8]   An efficient exponential time integration method for the numerical solution of the shallow water equations on the sphere [J].
Gaudreault, Stephane ;
Pudykiewicz, Janusz A. .
JOURNAL OF COMPUTATIONAL PHYSICS, 2016, 322 :827-848
[9]   Quasiequilibrium approximation of fast reaction kinetics in stochastic biochemical systems [J].
Goutsias, J .
JOURNAL OF CHEMICAL PHYSICS, 2005, 122 (18)
[10]   Modeling and simulating chemical reactions [J].
Higham, Desmond J. .
SIAM REVIEW, 2008, 50 (02) :347-368