scholarly journals Efficient high order schemes for stiff ODEs in cardiac electrophysiology

2018 ◽  
Vol Volume 28 - 2018 - 2019 -... ◽  
Author(s):  
Charlie Douanla Lontsi ◽  
Yves Coudière ◽  
Charles Pierre

International audience In this work we analyze the resort to high order exponential solvers for stiff ODEs in the context of cardiac electrophysiology modeling. The exponential Adams-Bashforth and the Rush-Larsen schemes will be considered up to order 4. These methods are explicit multistep schemes.The accuracy and the cost of these methods are numerically analyzed in this paper and benchmarked with several classical explicit and implicit schemes at various orders. This analysis has been led considering data of high particular interest in cardiac electrophysiology : the activation time ($t_a$ ), the recovery time ($t_r $) and the action potential duration ($APD$). The Beeler Reuter ionic model, especially designed for cardiac ventricular cells, has been used for this study. It is shown that, in spite of the stiffness of the considered model, exponential solvers allow computation at large time steps, as large as for implicit methods. Moreover, in terms of cost for a given accuracy, a significant gain is achieved with exponential solvers. We conclude that accurate computations at large time step are possible with explicit high order methods. This is a quite important feature when considering stiff non linear ODEs. Dans ce travail, nous analysons le recours aux solveurs exponentiels d’ordre élevé pourdes EDO raides dans le contexte de la modélisation en électrophysiologie cardiaque. Nous nousintéressons en particulier aux schémas exponentiels Adams Bashforth et Rush Larsen de l’ordre 2à 4. Ces schémas sont explicites et multi-pas. La précision et le coût de ces méthodes sont analysésnumériquement et comparés avec plusieurs schémas explicites et implicites classiques à diversordres. Cette analyse nous permet de calculer des valeurs informatives qui ont un interêt particulieren électrophysiologie cardiaque: Le temps d’activation (ta), le temps de restitution (tr) et la durée dupotentiel d’action (APD). L’étude est faite à travers le modèle ionique Beeler Reuter, spécialementconçu pour les cellules ventriculaires cardiaques. Nous montrons que malgré la raideur des équations,les schémas exponentiels permettent de faire des calculs à des pas de temps aussi grand quepour des schémas implicites. De plus pour une précision donnée, un gain significatif en terme de coûtest obtenu avec des solveurs exponentiels. Nous concluons qu’il est possible de faire des calculsprécis à des grands échelles de temps avec des schémas explicites d’ordre élevé. Ce qui est unecaractéristique très importante quand il s’agit des EDO raides et non linéaires.


2009 ◽  
Vol 3 (3) ◽  
pp. 443-459
Author(s):  
L.S. Lai ◽  
G.S. Djambazov ◽  
C.-H. Lai ◽  
K.A. Pericleous

In computational acoustics, fluid-acoustic coupling methods for the computation of sound have been widely used by researchers for the last five decades. In the first part of the coupling procedure, the fully unsteady incompressible or compressible flow equations for the near-field of the unsteady flow are solved by using a Computational Fluid Dynamics (CFD) technique, such as Direct Numerical Simulation (DNS), Large Eddy Simulation (LES) or unsteady Reynolds averaged Navier-Stokes equations (RANS) the CFD predictions are then used to calculate sound sources using the acoustic analogy or solving a set of acoustic perturbation equations (APE) leading to the solution of the acoustic field. It is possible to use a 2-D reduced problem to provide a preliminary understanding of many acoustic problems. Unfortunately 2-D CFD simulations using a fine-mesh-small-time-step-LES-alike numerical method cannot be considered as LES, which applies to 3-D simulations only. Therefore it is necessary to understand the similarities and the effect between filters applied to unsteady compressible Navier-Stokes equations and the combined effect of high-order schemes and mesh size. The aim of this study is to provide suitable LES-alike methods for 2-D simulations. An efficient software implementation of high-order schemes is also proposed. Numerical examples are provided to illustrate these statistical similarities.



2007 ◽  
Vol 14 (6) ◽  
pp. 763-776
Author(s):  
A. D. Terwisscha van Scheltinga ◽  
H. A. Dijkstra

Abstract. A comparison is made of the performance of the four-dimensional variational data assimilation (4D-Var) method in an explicit and implicit version of a barotropic quasi-geostrophic model of the wind-driven double-gyre ocean circulation. As is well known, implicit methods have the advantage that relatively large time steps can be taken with respect to explicit methods, but the computational costs of each time step is larger. We focus here on two issues: (i) the computational efficiency in the range of time steps where the chosen explicit method is still numerically stable and (ii) the performance of 4D-Var in the implicit model for time steps out of reach for the explicit model. For the same time step Δt and the same number of points n per assimilation interval, the analyses in the implicit model is always more accurate than that in the explicit model. Due to this property the use of 4D-Var combined with the implicit model can be computationally more efficient than its use in the explicit model.



2010 ◽  
Vol 12 (2) ◽  
pp. 97-109
Author(s):  
Hairui WEN ◽  
Jinghua WANG


Mathematics ◽  
2021 ◽  
Vol 9 (13) ◽  
pp. 1483
Author(s):  
Shanqin Chen

Weighted essentially non-oscillatory (WENO) methods are especially efficient for numerically solving nonlinear hyperbolic equations. In order to achieve strong stability and large time-steps, strong stability preserving (SSP) integrating factor (IF) methods were designed in the literature, but the methods there were only for one-dimensional (1D) problems that have a stiff linear component and a non-stiff nonlinear component. In this paper, we extend WENO methods with large time-stepping SSP integrating factor Runge–Kutta time discretization to solve general nonlinear two-dimensional (2D) problems by a splitting method. How to evaluate the matrix exponential operator efficiently is a tremendous challenge when we apply IF temporal discretization for PDEs on high spatial dimensions. In this work, the matrix exponential computation is approximated through the Krylov subspace projection method. Numerical examples are shown to demonstrate the accuracy and large time-step size of the present method.



Mathematics ◽  
2021 ◽  
Vol 9 (15) ◽  
pp. 1799
Author(s):  
Irene Gómez-Bueno ◽  
Manuel Jesús Castro Díaz ◽  
Carlos Parés ◽  
Giovanni Russo

In some previous works, two of the authors introduced a technique to design high-order numerical methods for one-dimensional balance laws that preserve all their stationary solutions. The basis of these methods is a well-balanced reconstruction operator. Moreover, they introduced a procedure to modify any standard reconstruction operator, like MUSCL, ENO, CWENO, etc., in order to be well-balanced. This strategy involves a non-linear problem at every cell at every time step that consists in finding the stationary solution whose average is the given cell value. In a recent paper, a fully well-balanced method is presented where the non-linear problems to be solved in the reconstruction procedure are interpreted as control problems. The goal of this paper is to introduce a new technique to solve these local non-linear problems based on the application of the collocation RK methods. Special care is put to analyze the effects of computing the averages and the source terms using quadrature formulas. A general technique which allows us to deal with resonant problems is also introduced. To check the efficiency of the methods and their well-balance property, they have been applied to a number of tests, ranging from easy academic systems of balance laws consisting of Burgers equation with some non-linear source terms to the shallow water equations—without and with Manning friction—or Euler equations of gas dynamics with gravity effects.



Author(s):  
A. Carpio ◽  
E. Cebrian

Abstract Hypoxy induced angiogenesis processes can be described by coupling an integrodifferential kinetic equation of Fokker–Planck type with a diffusion equation for the angiogenic factor. We propose high order positivity preserving schemes to approximate the marginal tip density by combining an asymptotic reduction with weighted essentially non oscillatory and strong stability preserving time discretization. We capture soliton-like solutions representing blood vessel formation and spread towards hypoxic regions.



2011 ◽  
Vol 218 (5) ◽  
pp. 2210-2224 ◽  
Author(s):  
J.C. Ndogmo ◽  
D.B. Ntwiga


2017 ◽  
Vol 74 (4) ◽  
pp. 684-700 ◽  
Author(s):  
Yves Coudière ◽  
Rodolphe Turpault


1988 ◽  
Vol 3 (3) ◽  
pp. 275-288 ◽  
Author(s):  
Saul Abarbanel ◽  
Ajay Kumar


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