SIAM Journal on Scientific Computing, Volume 38

Volume 38, Number 1, 2016

Methods and Algorithms for Scientific Computing

• 
  Liqian Peng, Kamran Mohseni:
  Symplectic Model Reduction of Hamiltonian Systems.
• 
  Jie Shen, Yingwei Wang, Jianlin Xia:
  Fast Structured Direct Spectral Methods for Differential Equations with Variable Coefficients, I. The One-Dimensional Case.
• 
  Lina Meinecke, Stefan Engblom, Andreas Hellander, Per Lötstedt:
  Analysis and Design of Jump Coefficients in Discrete Stochastic Diffusion Models.
• 
  Mathea J. Vuik, Jennifer K. Ryan:
  Automated Parameters for Troubled-Cell Indicators Using Outlier Detection.
• 
  Ruihan Guo, Yan Xu:
  Local Discontinuous Galerkin Method and High Order Semi-Implicit Scheme for the Phase Field Crystal Equation.
• 
  Michal Kocvara, Daniel Loghin, James Turner:
  Constraint Interface Preconditioning for Topology Optimization Problems.
• 
  Bangti Jin, Raytcho D. Lazarov, Zhi Zhou:
  Two Fully Discrete Schemes for Fractional Diffusion and Diffusion-Wave Equations with Nonsmooth Data.
• 
  Olivier Bokanowski, Maurizio Falcone, Smita Sahu:
  An Efficient Filtered Scheme for Some First Order Time-Dependent Hamilton-Jacobi Equations.
• 
  Samuel Herrmann, Etienne Tanré:
  The First-passage Time of the Brownian Motion to a Curved Boundary: an Algorithmic Approach.
• 
  Roman Andreev:
  Wavelet-In-Time Multigrid-In-Space Preconditioning of Parabolic Evolution Equations.
• 
  Alen Alexanderian, Noemi Petra, Georg Stadler, Omar Ghattas:
  A Fast and Scalable Method for A-Optimal Design of Experiments for Infinite-dimensional Bayesian Nonlinear Inverse Problems.
• 
  Yinnian He, Yan Zhang, Hui Xu, Zhangxin Chen:
  First-Order Decoupled Finite Element Method of the three-Dimensional Primitive Equations of the Ocean.
• 
  Kirk M. Soodhalter:
  Block Krylov Subspace Recycling for Shifted Systems with Unrelated Right-Hand Sides.
• 
  Jennifer Pestana, Richard L. Muddle, Matthias Heil, Françoise Tisseur, Milan D. Mihajlovic:
  Efficient Block Preconditioning for a C¹ Finite Element Discretization of the Dirichlet Biharmonic Problem.
• 
  Christoph Ortner, Lei Zhang:
  Atomistic/Continuum Blending with Ghost Force Correction.
• 
  Håkan T. Johansson, Christian Forssén:
  Fast and Accurate Evaluation of Wigner 3j, 6j, and 9j Symbols Using Prime Factorization and Multiword Integer Arithmetic.
• 
  Yeonjong Shin, Dongbin Xiu:
  Nonadaptive Quasi-Optimal Points Selection for Least Squares Linear Regression.
• 
  Laurent Gosse, Nicolas Vauchelet:
  Numerical High-Field Limits in Two-Stream Kinetic Models and 1D Aggregation Equations.
• 
  Andreas Karageorghis, C. S. Chen, Xiao-Yan Liu:
  Kansa-RBF Algorithms for Elliptic Problems in Axisymmetric Domains.
• 
  Peter Benner, Patrick Kürschner, Jens Saak:
  Frequency-Limited Balanced Truncation with Low-Rank Approximations.
• 
  Eugene Vecharynski, Chao Yang, Fei Xue:
  Generalized Preconditioned Locally Harmonic Residual Method for Non-Hermitian Eigenproblems.
• 
  Lei Zhang, Qiang Du, Zhenzhen Zheng:
  Optimization-based Shrinking Dimer Method for Finding Transition States.
• 
  Bernardo Cockburn, Jiguang Shen:
  A Hybridizable Discontinuous Galerkin Method for the p-Laplacian.
• 
  Miroslav Bacák, Ronny Bergmann, Gabriele Steidl, Andreas Weinmann:
  A Second Order Nonsmooth Variational Model for Restoring Manifold-Valued Images.
• 
  Xuan Zhao, Zhimin Zhang:
  Superconvergence Points of Fractional Spectral Interpolation.
• 
  Martin Storath, Andreas Weinmann, Michael Unser:
  Exact Algorithms for L¹-TV Regularization of Real-Valued or Circle-Valued Signals.

Computational Methods in Science and Engineering

• 
  James H. Adler, Thomas R. Benson, Eric C. Cyr, Scott P. MacLachlan, Raymond S. Tuminaro:
  Monolithic Multigrid Methods for Two-Dimensional Resistive Magnetohydrodynamics.
• 
  Francesca Arrigo, Michele Benzi:
  Updating and Downdating Techniques for Optimizing Network Communicability.
• 
  James H. Adler, David B. Emerson, Scott P. MacLachlan, Thomas A. Manteuffel:
  Constrained Optimization for Liquid Crystal Equilibria.
• 
  Janne M. J. Huttunen, Mikael J. Turunen, Juuso T. J. Honkanen, Juha Töyräs, Jukka S. Jurvelin:
  Estimation of Systematic and Spatially Correlated Components of Random Signals from Repeated Measurements: Application to Contrast Enhanced Computer Tomography Measurements.
• 
  Shuai Xue, Hyun-Kyung Lim, James Glimm, Flavio H. Fenton, Elizabeth M. Cherry:
  Sharp Boundary Electrocardiac Simulations.
• 
  Luis Ortiz-Gracia, Cornelis W. Oosterlee:
  A Highly Efficient Shannon Wavelet Inverse Fourier Technique for Pricing European Options.
• 
  Simon L. Cotter, Radek Erban:
  Error Analysis of Diffusion Approximation Methods for Multiscale Systems in Reaction Kinetics.
• 
  Yuantao Cai, Marco Donatelli, Davide Bianchi, Ting-Zhu Huang:
  Regularization Preconditioners for Frame-Based Image Deblurring with Reduced Boundary Artifacts.

Software and High-Performance Computing

• 
  Nicolas Bock, Matt Challacombe, Laxmikant V. Kalé:
  Solvers for O (N) Electronic Structure in the Strong Scaling Limit.
• 
  Santiago Badia, Alberto F. Martín, Javier Principe:
  Multilevel Balancing Domain Decomposition at Extreme Scales.
• 
  Massimo Bernaschi, Mauro Bisson, Carlo Fantozzi, Carlo Janna:
  A Factored Sparse Approximate Inverse Preconditioned Conjugate Gradient Solver on Graphics Processing Units.

Volume 38, Number 2, 2016

Methods and Algorithms for Scientific Computing

• 
  Zlatko Drmac, Serkan Gugercin:
  A New Selection Operator for the Discrete Empirical Interpolation Method - Improved A Priori Error Bound and Extensions.
• 
  Matthias Bolten, Karsten Kahl, Sonja Sokolovic:
  Multigrid Methods for Tensor Structured Markov Chains with Low Rank Approximation.
• 
  Prince Chidyagwai, Scott Ladenheim, Daniel B. Szyld:
  Constraint Preconditioning for the Coupled Stokes-Darcy System.
• 
  Wai-Sun Don, Zhen Gao, Peng Li, Xiao Wen:
  Hybrid Compact-WENO Finite Difference Scheme with Conjugate Fourier Shock Detection Algorithm for Hyperbolic Conservation Laws.
• 
  Benedict J. Leimkuhler, Xiaocheng Shang:
  Adaptive Thermostats for Noisy Gradient Systems.
• 
  Nicolas Crouseilles, Hélène Hivert, Mohammed Lemou:
  Numerical Schemes for Kinetic Equations in the Anomalous Diffusion Limit. Part I: The Case of Heavy-Tailed Equilibrium.
• 
  Bor Plestenjak, Michiel E. Hochstenbach:
  Roots of Bivariate Polynomial Systems via Determinantal Representations.
• 
  Xianyi Zeng:
  A General Approach to Enhance Slope Limiters in MUSCL Schemes on Nonuniform Rectilinear Grids.
• 
  Fei Liu, Lexing Ying:
  Recursive Sweeping Preconditioner for the Three-Dimensional Helmholtz Equation.
• 
  Chris J. Vogl:
  A Curvature-Augmented, REA Approach to the Level Set Method.
• 
  Peipei Lu, Xuejun Xu:
  A Robust Multilevel Method for the Time-harmonic Maxwell Equation with High Wave Number.
• 
  Johannes K. Kraus, Raytcho D. Lazarov, Maria Lymbery, Svetozar Margenov, Ludmil T. Zikatanov:
  Preconditioning Heterogeneous H(div) Problems by Additive Schur Complement Approximation and Applications.
• 
  Roel Matthysen, Daan Huybrechs:
  Fast Algorithms for the Computation of Fourier Extensions of Arbitrary Length.
• 
  Jeremy E. Kozdon, Lucas C. Wilcox:
  Stable Coupling of Nonconforming, High-Order Finite Difference Methods.
• 
  David Cohen, Olivier Verdier:
  MultiSymplectic Discretization of Wave Map Equations.
• 
  Xue Jiang, Peijun Li, Weiying Zheng:
  Eddy Current Model for Nondestructive Evaluation with Thin Cracks.
• 
  Hans De Sterck, Alexander J. M. Howse:
  Nonlinearly Preconditioned Optimization on Grassmann Manifolds for Computing Approximate Tucker Tensor Decompositions.
• 
  Matthias Kirchhart, Sven Groß, Arnold Reusken:
  Analysis of an XFEM Discretization for Stokes Interface Problems.
• 
  Olivier Zahm, Anthony Nouy:
  Interpolation of Inverse Operators for Preconditioning Parameter-Dependent Equations.
• 
  Milana Gataric, Clarice Poon:
  A Practical Guide to the Recovery of Wavelet Coefficients from Fourier Measurements.
• 
  Amir Averbuch, Gil Shabat, Yoel Shkolnisky:
  Direct Inversion of the Three-Dimensional Pseudo-polar Fourier Transform.
• 
  Sara N. Pollock:
  An Improved Method for Solving Quasi-linear Convection Diffusion Problems on a Coarse Mesh.
• 
  Jesse Chan, Timothy C. Warburton:
  Orthogonal Bases for Vertex-Mapped Pyramids.
• 
  Kenneth Duru:
  The Role of Numerical Boundary Procedures in the Stability of Perfectly Matched Layers.
• 
  Roland Glowinski, Shingyu Leung, Jianliang Qian:
  Operator-Splitting Based Fast Sweeping Methods for Isotropic Wave Propagation in a Moving Fluid.
• 
  Leevan Ling:
  A Fast Block-Greedy Algorithm for Quasi-optimal Meshless Trial Subspace Selection.

Computational Methods in Science and Engineering

• 
  Tsung-Ming Huang, Wen-Wei Lin, Volker Mehrmann:
  A Newton-Type Method with Nonequivalence Deflation for Nonlinear Eigenvalue Problems Arising in Photonic Crystal Modeling.
• 
  Olivier Bodart, Valérie Cayol, Sébastien Court, Jonas Koko:
  XFEM-Based Fictitious Domain Method for Linear Elasticity Model with Crack.
• 
  Ngoc Cuong Nguyen, Han Men, Robert M. Freund, Jaume Peraire:
  Functional Regression for State Prediction Using Linear PDE Models and Observations.
• 
  Michael A. Hansen, James C. Sutherland:
  Pseudotransient Continuation for Combustion Simulation with Detailed Reaction Mechanisms.
• 
  David Amsallem, Jan Nordström:
  Energy Stable Model Reduction of Neurons by Nonnegative Discrete Empirical Interpolation.
• 
  Kazufumi Ito, A. K. Landi:
  The Nonnegative Matrix Factorization: Regularization and Complexity.

Software and High-Performance Computing

• 
  Fande Kong, Xiao-Chuan Cai:
  A Highly Scalable Multilevel Schwarz Method with Boundary Geometry Preserving Coarse Spaces for 3D Elasticity Problems on Domains with Complex Geometry.
• 
  Florian Schornbaum, Ulrich Rüde:
  Massively Parallel Algorithms for the Lattice Boltzmann Method on NonUniform Grids.

Volume 38, Number 3, 2016

Methods and Algorithms for Scientific Computing

• 
  Kody J. H. Law, Hamidou Tembine, Raúl Tempone:
  Deterministic Mean-Field Ensemble Kalman Filtering.
• 
  Mounir Bennoune, Jérôme Morin-Drouin, Robert G. Owens:
  On the Jump Conditions for an Immersed Interface Method.
• 
  Alastair Gregory, Colin J. Cotter, Sebastian Reich:
  Multilevel Ensemble Transform Particle Filtering.
• 
  Huadong Gao, Weiwei Sun:
  A New Mixed Formulation and Efficient Numerical Solution of Ginzburg-Landau Equations Under the Temporal Gauge.
• 
  James Vogel, Jianlin Xia, Stephen Cauley, Venkataramanan Balakrishnan:
  Superfast Divide-and-Conquer Method and Perturbation Analysis for Structured Eigenvalue Solutions.
• 
  Yidu Yang, Hai Bi, Hao Li, Jiayu Han:
  Mixed Methods for the Helmholtz Transmission Eigenvalues.
• 
  Sanghyun Lee, Young-Ju Lee, Mary F. Wheeler:
  A Locally Conservative Enriched Galerkin Approximation and Efficient Solver for Elliptic and Parabolic Problems.
• 
  Hong Zhang, Adrian Sandu, Sébastien Blaise:
  High Order Implicit-explicit General Linear Methods with Optimized Stability Regions.
• 
  Danny C. Sorensen, Mark Embree:
  A DEIM Induced CUR Factorization.
• 
  Orazio Muscato, Wolfgang Wagner:
  A Class of Stochastic Algorithms for the Wigner Equation.
• 
  Daniele Boffi, Michele Botti, Daniele A. Di Pietro:
  A Nonconforming High-Order Method for the Biot Problem on General Meshes.
• 
  Natalie N. Beams, Luke N. Olson, Jonathan B. Freund:
  A Finite Element Based P³M Method for N-Body Problems.
• 
  Jan Nordström, Tomas Lundquist:
  Summation-By-Parts in Time: The Second Derivative.
• 
  Dante Kalise, Axel Kröner, Karl Kunisch:
  Local Minimization Algorithms for Dynamic Programming Equations.
• 
  Michael P. Friedlander, Ives Macêdo:
  Low-Rank Spectral Optimization via Gauge Duality.
• 
  Marco Caliari, Peter Kandolf, Alexander Ostermann, Stefan Rainer:
  The Leja Method Revisited: Backward Error Analysis for the Matrix Exponential.
• 
  Nicola Guglielmi:
  On the Method by Rostami for Computing the Real Stability Radius of Large and Sparse Matrices.
• 
  Mark Ainsworth, Manuel A. Sánchez:
  Computing the Bézier Control Points of the Lagrangian Interpolant in Arbitrary Dimension.
• 
  Jizu Huang, Chao Yang, Xiao-Chuan Cai:
  A Nonlinearly Preconditioned Inexact Newton Algorithm for Steady State Lattice Boltzmann Equations.
• 
  Sheng-Gwo Chen, Jyh-Yang Wu:
  Discrete Conservation Laws on Evolving Surfaces.
• 
  Andreas Rademacher:
  NCP Function-Based Dual Weighted Residual Error Estimators for Signorini's Problem.
• 
  Sivaram Ambikasaran, Carlos Borges, Lise-Marie Imbert-Gérard, Leslie Greengard:
  Fast, Adaptive, High-Order Accurate Discretization of the Lippmann-Schwinger Equation in Two Dimensions.
• 
  M. Ableidinger, Evelyn Buckwar:
  Splitting Integrators for the Stochastic Landau-Lifshitz Equation.
• 
  Jirí Kopal, Miroslav Rozlozník, Miroslav Tuma:
  Factorized Approximate Inverses with Adaptive Dropping.
• 
  Anaïs Crestetto, Fabrice Deluzet, Claudia Negulescu:
  A Hybrid Method for Anisotropic Elliptic Problems Based on the Coupling of an Asymptotic-Preserving Method with the Asymptotic Limit Model.
• 
  Debojyoti Ghosh, Emil M. Constantinescu:
  Semi-implicit Time Integration of Atmospheric Flows with Characteristic-Based Flux Partitioning.
• 
  Yu-Wen Li, Xinyuan Wu:
  Exponential Integrators Preserving First Integrals or Lyapunov Functions for Conservative or Dissipative Systems.
• 
  Nicole Spillane:
  An Adaptive MultiPreconditioned Conjugate Gradient Algorithm.

Computational Methods in Science and Engineering

• 
  Mauricio J. Del Razo, Yoichi Morofuji, James S. Meabon, B. Russell Huber, Elaine R. Peskind, William A. Banks, Pierre D. Mourad, Randall J. LeVeque, David G. Cook:
  Computational and In Vitro Studies of Blast-Induced Blood-Brain Barrier Disruption.
• 
  Zecheng Gan, Shidong Jiang, Erik Luijten, Zhenli Xu:
  A Hybrid Method for Systems of Closely Spaced Dielectric Spheres and Ions.
• 
  Marylesa Howard, Michael Fowler, Aaron Luttman, Stephen E. Mitchell, Margaret C. Hock:
  Bayesian Abel Inversion in Quantitative X-Ray Radiography.
• 
  Xiaowei Zhang, Li Cheng, Delin Chu, Li-Zhi Liao, Michael K. Ng, Roger C. E. Tan:
  Incremental Regularized Least Squares for Dimensionality Reduction of Large-Scale Data.
• 
  Antti H. Niemi:
  Benchmark Computations of Stresses in a Spherical Dome with Shell Finite Elements.
• 
  Kailiang Wu, Huazhong Tang:
  A Direct Eulerian GRP Scheme for Spherically Symmetric General Relativistic Hydrodynamics.

Software and High-Performance Computing

• 
  Megan E. Farquhar, Timothy J. Moroney, Qianqian Yang, Ian W. Turner:
  GPU Accelerated Algorithms for Computing Matrix Function Vector Products with Applications to Exponential Integrators and Fractional Diffusion.
• 
  Jack Lee, Andrew N. Cookson, Ishani Roy, Eric Kerfoot, Liya Asner, G. Vigueras, T. Sochi, Simone Deparis, Christian Michler, Nicolas P. Smith, David A. Nordsletten:
  Multiphysics Computational Modeling in CHeart.
• 
  Brian Drawert, Michael Trogdon, Salman Zubair Toor, Linda R. Petzold, Andreas Hellander:
  MOLNs: A Cloud Platform for Interactive, Reproducible, and Scalable Spatial Stochastic Computational Experiments in Systems Biology Using PyURDME.
• 
  Grey Ballard, Christopher M. Siefert, Jonathan J. Hu:
  Reducing Communication Costs for Sparse Matrix Multiplication within Algebraic Multigrid.
• 
  Guillaume Aupy, Julien Herrmann, Paul D. Hovland, Yves Robert:
  Optimal Multistage Algorithm for Adjoint Computation.
• 
  Emmanuel Agullo, Patrick R. Amestoy, Alfredo Buttari, Abdou Guermouche, Jean-Yves L'Excellent, François-Henry Rouet:
  Robust Memory-Aware Mappings for Parallel Multifrontal Factorizations.
• 
  Amir Gholami, Dhairya Malhotra, Hari Sundar, George Biros:
  FFT, FMM, or Multigrid? A comparative Study of State-Of-the-Art Poisson Solvers for Uniform and Nonuniform Grids in the Unit Cube.
• 
  Rolf Krause, Patrick Zulian:
  A Parallel Approach to the Variational Transfer of Discrete Fields between Arbitrarily Distributed Unstructured Finite Element Meshes.

Volume 38, Number 4, 2016

Methods and Algorithms for Scientific Computing

• 
  Hailiang Liu, Yulong Xing:
  An Invariant Preserving Discontinuous Galerkin Method for the Camassa-Holm Equation.
• 
  Jason E. Hicken, David C. Del Rey Fernández, David W. Zingg:
  Multidimensional Summation-by-Parts Operators: General Theory and Application to Simplex Elements.
• 
  Per-Gunnar Martinsson:
  Compressing Rank-Structured Matrices via Randomized Sampling.
• 
  Youngsoo Ha, Changho Kim, Hyoseon Yang, Jungho Yoon:
  Sixth-order Weighted Essentially Nonoscillatory Schemes Based on Exponential Polynomials.
• 
  Daniel Kressner, Michael Steinlechner, Bart Vandereycken:
  Preconditioned Low-rank Riemannian Optimization for Linear Systems with Tensor Product Structure.
• 
  Jonas Ballani, Daniel Kressner:
  Reduced Basis Methods: From Low-Rank Matrices to Low-Rank Tensors.
• 
  Moritz Schulze Darup, Martin Mönnigmann:
  Improved Automatic Computation of Hessian Matrix Spectral Bounds.
• 
  Alvaro Moraes, Raúl Tempone, Pedro Vilanova:
  A Multilevel Adaptive Reaction-splitting Simulation Method for Stochastic Reaction Networks.
• 
  Alexei Bespalov, David J. Silvester:
  Efficient Adaptive Stochastic Galerkin Methods for Parametric Operator Equations.
• 
  Julian Becerra-Sagredo, Carlos Málaga, Francisco Mandujano:
  Moments Preserving and high-resolution Semi-Lagrangian Advection Scheme.
• 
  Jesse Chan, Tim Warburton:
  A Short Note on a Bernstein-Bezier Basis for the Pyramid.
• 
  Martin J. Gander, Martin Neumüller:
  Analysis of a New Space-Time Parallel Multigrid Algorithm for Parabolic Problems.
• 
  Andrea Barth, Franz G. Fuchs:
  Uncertainty Quantification for Hyperbolic Conservation Laws with Flux Coefficients Given by Spatiotemporal Random Fields.
•