SIAM Journal on Scientific Computing, Volume 40

Volume 40, Number 1, 2018

Methods and Algorithms for Scientific Computing

• 
  Meng Wang, Shingyu Leung, Hongkai Zhao:
  Modified Virtual Grid Difference for Discretizing the Laplace-Beltrami Operator on Point Clouds.
• 
  Matthias Heinkenschloss, Dörte Jando:
  Reduced Order Modeling for Time-Dependent Optimization Problems with Initial Value Controls.
• 
  Alexandre Caboussat, Roland Glowinski:
  An Alternating Direction Method of Multipliers for the Numerical Solution of a Fully Nonlinear Partial Differential Equation Involving the Jacobian Determinant.
• 
  Tong Qin, Chi-Wang Shu:
  Implicit Positivity-Preserving High-Order Discontinuous Galerkin Methods for Conservation Laws.
• 
  Herbert Egger:
  A Robust Conservative Mixed Finite Element Method for Isentropic Compressible Flow on Pipe Networks.
• 
  Hannah Morgan, L. Ridgway Scott:
  Towards a Unified Finite Element Method for the Stokes Equations.
• 
  Kainan Wang, Tan Bui-Thanh, Omar Ghattas:
  A Randomized Maximum A Posteriori Method for Posterior Sampling of High Dimensional Nonlinear Bayesian Inverse Problems.
• 
  Maziar Raissi, Paris Perdikaris, George E. Karniadakis:
  Numerical Gaussian Processes for Time-Dependent and Nonlinear Partial Differential Equations.
• 
  Jonathan Feinberg, Vinzenz Gregor Eck, Hans Petter Langtangen:
  Multivariate Polynomial Chaos Expansions with Dependent Variables.
• 
  Huo-Yuan Duan, Roger C. E. Tan, Suh-Yuh Yang, Cheng-Shu You:
  A Mixed H¹-Conforming Finite Element Method for Solving Maxwell's Equations with Non-H¹ Solution.
• 
  Kevin W. Aiton, Tobin A. Driscoll:
  An Adaptive Partition of Unity Method for Chebyshev Polynomial Interpolation.
• 
  Ka Chun Cheung, Leevan Ling:
  A Kernel-Based Embedding Method and Convergence Analysis for Surfaces PDEs.
• 
  Christophe Chalons, Paola Goatin, Luis M. Villada:
  High-Order Numerical Schemes for One-Dimensional Nonlocal Conservation Laws.
• 
  Wouter Tierens:
  Unification of Leapfrog and Crank-Nicolson Finite Difference Time Domain Methods.
• 
  Herbert Egger, Thomas Kugler, Björn Liljegren-Sailer, Nicole Marheineke, Volker Mehrmann:
  On Structure-Preserving Model Reduction for Damped Wave Propagation in Transport Networks.
• 
  Ling Guo, Akil C. Narayan, Liang Yan, Tao Zhou:
  Weighted Approximate Fekete Points: Sampling for Least-Squares Polynomial Approximation.
• 
  Masayuki Yano:
  A Reduced Basis Method for Coercive Equations with an Exact Solution Certificate and Spatio-Parameter Adaptivity: Energy-Norm and Output Error Bounds.
• 
  Hadrien Montanelli, Yuji Nakatsukasa:
  Fourth-Order Time-Stepping For Stiff PDEs On The Sphere.
• 
  Alessandro Buccini, Marco Donatelli, Ronny Ramlau:
  A Semiblind Regularization Algorithm for Inverse Problems with Application to Image Deblurring.
• 
  Roland Glowinski, Shingyu Leung, Jianliang Qian:
  A Simple Explicit Operator-Splitting Method for Effective Hamiltonians.
• 
  Giacomo Dimarco, Lorenzo Pareschi, Giovanni Samaey:
  Asymptotic-Preserving Monte Carlo Methods for Transport Equations in the Diffusive Limit.
• 
  Diego Ruiz-Antolín, Alex Townsend:
  A Nonuniform Fast Fourier Transform Based on Low Rank Approximation.
• 
  Xiaoliang Wan, Xiang Zhou:
  Asymptotically Efficient Simulation of Elliptic Problems with Small Random Forcing.
• 
  Tommy Elfving, Per Christian Hansen:
  Unmatched Projector/Backprojector Pairs: Perturbation and Convergence Analysis.
• 
  Zhong-Zhi Bai, Wen-Ting Wu:
  On Greedy Randomized Kaczmarz Method for Solving Large Sparse Linear Systems.
• 
  Zhiqiang Sheng, Guangwei Yuan:
  Construction of Nonlinear Weighted Method for Finite Volume Schemes Preserving Maximum Principle.

Computational Methods in Science and Engineering

• 
  Nat Chun-Ho Leung, Christina C. Christara, Duy-Minh Dang:
  Partial Differential Equation Pricing of Contingent Claims under Stochastic Correlation.
• 
  Robert W. Anderson, Veselin A. Dobrev, Tzanio V. Kolev, Robert N. Rieben, Vladimir Z. Tomov:
  High-Order Multi-Material ALE Hydrodynamics.
• 
  Stefano Zonca, Christian Vergara, Luca Formaggia:
  An Unfitted Formulation for the Interaction of an Incompressible Fluid with a Thick Structure via an XFEM/DG Approach.
• 
  Johannes Semmler, Lukas Pflug, Michael Stingl:
  Material Optimization in Transverse Electromagnetic Scattering Applications.
• 
  Yali Gao, Xiaoming He, Liquan Mei, Xiaofeng Yang:
  Decoupled, Linear, and Energy Stable Finite Element Method for the Cahn-Hilliard-Navier-Stokes-Darcy Phase Field Model.
• 
  Yuezheng Gong, Jia Zhao, Xiaogang Yang, Qi Wang:
  Fully Discrete Second-Order Linear Schemes for Hydrodynamic Phase Field Models of Binary Viscous Fluid Flows with Variable Densities.
• 
  Majid K. Vakilzadeh, James L. Beck, Thomas Abrahamsson:
  Using Approximate Bayesian Computation by Subset Simulation for Efficient Posterior Assessment of Dynamic State-Space Model Classes.
• 
  Navid Rahimi, Pierre Kerfriden, Frank C. Langbein, Ralph R. Martin:
  CAD Model Simplification Error Estimation for Electrostatics Problems.
• 
  Alessio Fumagalli, Eirik Keilegavlen:
  Dual Virtual Element Method for Discrete Fractures Networks.
• 
  Duan Chen, Min Hyung Cho, Wei Cai:
  Accurate and Efficient Nyström Volume Integral Equation Method for Electromagnetic Scattering of 3-D Metamaterials in Layered Media.
• 
  Syuzanna Sargsyan, Steven L. Brunton, J. Nathan Kutz:
  Online Interpolation Point Refinement for Reduced-Order Models using a Genetic Algorithm.
• 
  Antti Lipponen, Janne M. J. Huttunen, Sami Romakkaniemi, Harri Kokkola, Ville Kolehmainen:
  Correction of Model Reduction Errors in Simulations.

Software and High-Performance Computing

• 
  Devin A. Matthews:
  High-Performance Tensor Contraction without Transposition.
• 
  Enver Kayaaslan, Cevdet Aykanat, Bora Uçar:
  1.5D Parallel Sparse Matrix-Vector Multiply.
• 
  Cameron W. Smith, Michel E. Rasquin, Dan Ibanez, Kenneth E. Jansen, Mark S. Shephard:
  Improving Unstructured Mesh Partitions for Multiple Criteria Using Mesh Adjacencies.
• 
  Robert C. Kirby, Lawrence Mitchell:
  Solver Composition Across the PDE/Linear Algebra Barrier.
• 
  Oguz Kaya, Bora Uçar:
  Parallel Candecomp/Parafac Decomposition of Sparse Tensors Using Dimension Trees.
• 
  Maxence Reberol, Bruno Lévy:
  Computing the Distance between Two Finite Element Solutions Defined on Different 3D Meshes on a GPU.

Volume 40, Number 2, 2018

Methods and Algorithms for Scientific Computing

• 
  Dante Kalise, Karl Kunisch:
  Polynomial Approximation of High-Dimensional Hamilton-Jacobi-Bellman Equations and Applications to Feedback Control of Semilinear Parabolic PDEs.
• 
  J. Quer, L. Donati, B. G. Keller, M. Weber:
  An Automatic Adaptive Importance Sampling Algorithm for Molecular Dynamics in Reaction Coordinates.
• 
  Shi Jin, Hanqing Lu, Lorenzo Pareschi:
  Efficient Stochastic Asymptotic-Preserving Implicit-Explicit Methods for Transport Equations with Diffusive Scalings and Random Inputs.
• 
  Toni Karvonen, Simo Särkkä:
  Fully Symmetric Kernel Quadrature.
• 
  Evan S. Gawlik, Melvin Leok:
  Embedding-Based Interpolation on the Special Orthogonal Group.
• 
  Juan Manzanero, Gonzalo Rubio, Esteban Ferrer, Eusebio Valero:
  Dispersion-Dissipation Analysis for Advection Problems with Nonconstant Coefficients: Applications to Discontinuous Galerkin Formulations.
• 
  Jessica Cervi, Raymond J. Spiteri:
  High-Order Operator Splitting for the Bidomain and Monodomain Models.
• 
  Sebastiano Boscarino, Jing-Mei Qiu, Giovanni Russo:
  Implicit-Explicit Integral Deferred Correction Methods for Stiff Problems.
• 
  Erin C. Carson, Nicholas J. Higham:
  Accelerating the Solution of Linear Systems by Iterative Refinement in Three Precisions.
• 
  Boris Kramer, Alex A. Gorodetsky:
  System Identification via CUR-Factored Hankel Approximation.
• 
  Elias David Niño Ruiz, Adrian Sandu, Xinwei Deng:
  An Ensemble Kalman Filter Implementation Based on Modified Cholesky Decomposition for Inverse Covariance Matrix Estimation.
• 
  Ajay Jasra, Kengo Kamatani, Kody J. H. Law, Yan Zhou:
  Bayesian Static Parameter Estimation for Partially Observed Diffusions via Multilevel Monte Carlo.
• 
  Jun Zhu, Jianxian Qiu:
  New Finite Volume Weighted Essentially Nonoscillatory Schemes on Triangular Meshes.
• 
  Weizhu Bao, Chunmei Su:
  A Uniformly and Optimally Accurate Method for the Zakharov System in the Subsonic Limit Regime.
• 
  Niccolò Dal Santo, Simone Deparis, Andrea Manzoni, Alfio Quarteroni:
  Multi Space Reduced Basis Preconditioners for Large-Scale Parametrized PDEs.
• 
  Troy D. Butler, John D. Jakeman, Tim Wildey:
  Combining Push-Forward Measures and Bayes' Rule to Construct Consistent Solutions to Stochastic Inverse Problems.
• 
  Eleanor McDonald, Jennifer Pestana, Andrew J. Wathen:
  Preconditioning and Iterative Solution of All-at-Once Systems for Evolutionary Partial Differential Equations.
• 
  Peter Benner, Venera Khoromskaia, Boris N. Khoromskij:
  Range-Separated Tensor Format for Many-Particle Modeling.
• 
  Florent Chave, Daniele A. Di Pietro, Luca Formaggia:
  A Hybrid High-Order Method for Darcy Flows in Fractured Porous Media.
• 
  Wansheng Wang, Ting Rao, Weiwei Shen, Peng Zhong:
  A Posteriori Error Analysis for Crank-Nicolson-Galerkin Type Methods for Reaction-Diffusion Equations with Delay.
• 
  Andrew T. T. McRae, Colin J. Cotter, Chris J. Budd:
  Optimal-Transport-Based Mesh Adaptivity on the Plane and Sphere Using Finite Elements.
• 
  M. V. Rakhuba, Ivan V. Oseledets:
  Jacobi-Davidson Method on Low-Rank Matrix Manifolds.
• 
  Lulu Liu, David E. Keyes, Rolf H. Krause:
  A Note on Adaptive Nonlinear Preconditioning Techniques.
• 
  Andrew T. Barker, Veselin Dobrev, Jayadeep Gopalakrishnan, Tzanio V. Kolev:
  A Scalable Preconditioner for a Primal Discontinuous Petrov-Galerkin Method.
• 
  Roland Griesmaier, Rohit Kumar Mishra, Christian Schmiedecke:
  Inverse Source Problems for Maxwell's Equations and the Windowed Fourier Transform.

Computational Methods in Science and Engineering

• 
  Matthias Morzfeld, Marcus S. Day, Ray W. Grout, George Shu Heng Pau, Stefan Finsterle, John B. Bell:
  Iterative Importance Sampling Algorithms for Parameter Estimation.
• 
  Ivi C. Tsantili, Min Hyung Cho, Wei Cai, George E. Karniadakis:
  A Computational Stochastic Methodology for the Design of Random Meta-materials under Geometric Constraints.
• 
  Fei Liu, Lexing Ying:
  Sparsify and Sweep: An Efficient Preconditioner for the Lippmann-Schwinger Equation.
• 
  Stephan Schmidt, Maria Schutte, Andrea Walther:
  Efficient Numerical Solution of Geometric Inverse Problems Involving Maxwell's Equations Using Shape Derivatives and Automatic Code Generation.
• 
  Elsa Cazelles, Vivien Seguy, Jérémie Bigot, Marco Cuturi, Nicolas Papadakis:
  Geodesic PCA versus Log-PCA of Histograms in the Wasserstein Space.
• 
  Ionut-Gabriel Farcas, Benjamin Uekermann, Tobias Neckel, Hans-Joachim Bungartz:
  Nonintrusive Uncertainty Analysis of Fluid-Structure Interaction with Spatially Adaptive Sparse Grids and Polynomial Chaos Expansion.
• 
  C. Kristopher Garrett, Cory D. Hauck:
  A Fast Solver for Implicit Integration of the Vlasov-Poisson System in the Eulerian Framework.
• 
  Tiantian Liu, Minxin Chen, Benzhuo Lu:
  Efficient and Qualified Mesh Generation for Gaussian Molecular Surface Using Adaptive Partition and Piecewise Polynomial Approximation.
• 
  Yuezheng Gong, Jia Zhao, Qi Wang:
  Second Order Fully Discrete Energy Stable Methods on Staggered Grids for Hydrodynamic Phase Field Models of Binary Viscous Fluids.
• 
  Martin P. Neuenhofen, Chen Greif:
  Mstab: Stabilized Induced Dimension Reduction for Krylov Subspace Recycling.
• 
  Ion Victor Gosea, Mihály Petreczky, Athanasios C. Antoulas:
  Data-Driven Model Order Reduction of Linear Switched Systems in the Loewner Framework.
• 
  Tommaso Taddei, Anthony T. Patera:
  A Localization Strategy for Data Assimilation; Application to State Estimation and Parameter Estimation.
• 
  Raimund Bürger, Kenettinkara Sudarshan Kumar, Ricardo Ruiz-Baier, Héctor Torres:
  Coupling of Discontinuous Galerkin Schemes for Viscous Flow in Porous Media with Adsorption.

Software and High-Performance Computing

• 
  Björn Adlerborn, Lars Karlsson, Bo Kågström:
  Distributed One-Stage Hessenberg-Triangular Reduction with Wavefront Scheduling.
• 
  Laura Grigori, Sébastien Cayrols, James Weldon Demmel:
  Low Rank Approximation of a Sparse Matrix Based on LU Factorization with Column and Row Tournament Pivoting.
• 
  Stephan Schmidt:
  Weak and Strong Form Shape Hessians and Their Automatic Generation.
• 
  Shawn W. Walker:
  FELICITY: A Matlab/C++ Toolbox for Developing Finite Element Methods and Simulation Modeling.
• 
  Adam P. Harrison, Dileepan Joseph:
  High Performance Rearrangement and Multiplication Routines for Sparse Tensor Arithmetic.

Volume 40, Number 3, 2018

Methods and Algorithms for Scientific Computing

• 
  Ludvig af Klinteberg, Anna-Karin Tornberg:
  Adaptive Quadrature by Expansion for Layer Potential Evaluation in Two Dimensions.
• 
  Samira Nikkar, Jan Nordström:
  Summation-by-Parts Operators for Non-Simply Connected Domains.
• 
  Jun Wang, Leslie Greengard:
  An Adaptive Fast Gauss Transform in Two Dimensions.
• 
  Zhe Feng, Jinglai Li:
  An Adaptive Independence Sampler MCMC Algorithm for Bayesian Inferences of Functions.
• 
  Julius Reiss, Philipp Schulze, Jörn Sesterhenn, Volker Mehrmann:
  The Shifted Proper Orthogonal Decomposition: A Mode Decomposition for Multiple Transport Phenomena.
• 
  Fuhui Fang, Jingfang Huang, Gary A. Huber, James Andrew McCammon, Bo Zhang:
  Hierarchical Orthogonal Matrix Generation and Matrix-Vector Multiplications in Rigid Body Simulations.
• 
  Xin He, Cornelis Vuik, Christiaan M. Klaij:
  Combining the Augmented Lagrangian Preconditioner with the Simple Schur Complement Approximation.
• 
  Tom Gustafsson, Rolf Stenberg, Juha H. Videman:
  A Posteriori Estimates for Conforming Kirchhoff Plate Elements.
• 
  Willem Hundsdorfer, Karel J. in 't Hout:
  On Multistep Stabilizing Correction Splitting Methods with Applications to the Heston Model.
• 
  Qiang Du, Houde Han, Jiwei Zhang, Chunxiong Zheng:
  Numerical Solution of a Two-Dimensional Nonlocal Wave Equation on Unbounded Domains.
• 
  Shu-Lin Wu:
  Toward Parallel Coarse Grid Correction for the Parareal Algorithm.
• 
  James J. Brannick, Fei Cao, Karsten Kahl, Robert D. Falgout, Xiaozhe Hu:
  Optimal Interpolation and Compatible Relaxation in Classical Algebraic Multigrid.
• 
  Yuji Nakatsukasa, Olivier Sète, Lloyd N. Trefethen:
  The AAA Algorithm for Rational Approximation.
• 
  Shucheng Pan, Xiangyu Hu, Nikolaus A. Adams:
  A Consistent Analytical Formulation for Volume Estimation of Geometries Enclosed by Implicitly Defined Surfaces.
• 
  Francesc Pons Llopis, Nikolas Kantas, Alexandros Beskos, Ajay Jasra:
  Particle Filtering for Stochastic Navier-Stokes Signal Observed with Linear Additive Noise.
• 
  Jeffrey M. Hokanson, Paul G. Constantine:
  Data-Driven Polynomial Ridge Approximation Using Variable Projection.
• 
  Krzysztof Domino, Piotr Gawron, Lukasz Pawela:
  Efficient Computation of Higher-Order Cumulant Tensors.
• 
  Manuel Baumann, Peter Benner, Jan Heiland:
  Space-Time Galerkin POD with Application in Optimal Control of Semilinear Partial Differential Equations.
• 
  Matthias Bolten, Hannah Rittich:
  Fourier Analysis of Periodic Stencils in Multigrid Methods.
• 
  Saviz Mowlavi, Themistoklis P. Sapsis:
  Model Order Reduction for Stochastic Dynamical Systems with Continuous Symmetries.
• 
  Awad H. Al-Mohy:
  A Truncated Taylor Series Algorithm for Computing the Action of Trigonometric and Hyperbolic Matrix Functions.
• 
  Christophe Gomez, Olivier Pinaud:
  Monte Carlo Methods for Radiative Transfer with Singular Kernels.
• 
  Daria A. Sushnikova, Ivan V. Oseledets:
  "Compress and Eliminate" Solver for Symmetric Positive Definite Sparse Matrices.
• 
  Chung-Ki Cho, Byungjoon Lee, Seongjai Kim:
  Dual-Mesh Characteristics for Particle-Mesh Methods for the Simulation of Convection-Dominated Flows.
• 
  Raul Borsche, Axel Klar:
  Kinetic Layers and Coupling Conditions for Macroscopic Equations on Networks I: The Wave Equation.
• 
  Fei Xue:
  A Block Preconditioned Harmonic Projection Method for Large-Scale Nonlinear Eigenvalue Problems.
• 
  Marica Pelanti:
  Wave Structure Similarity of the HLLC and Roe Riemann Solvers: Application to Low Mach Number Preconditioning.
• 
  H. V. R. Mittal, Rajendra K. Ray:
  Solving Immersed Interface Problems Using a New Interfacial Points-Based Finite Difference Approach.
• 
  Ron Estrin, Chen Greif:
  SPMR: A Family of Saddle-Point Minimum Residual Solvers.
• 
  Jeffrey S. Ovall, Samuel E. Reynolds:
  A High-Order Method for Evaluating Derivatives of Harmonic Functions in Planar Domains.
• 
  Ali Abdi, Seyyed Ahmad Hosseini:
  The Barycentric Rational Difference-Quadrature Scheme for Systems of Volterra Integro-differential Equations.

Computational Methods in Science and Engineering

• 
  Nuutti Hyvönen, Lauri Mustonen:
  Thermal Tomography with Unknown Boundary.
• 
  Gijs L. Kooij, Mike A. Botchev, Bernard J. Geurts:
  An Exponential Time Integrator for the Incompressible Navier-Stokes Equation.
• 
  Zhenning Cai, Jianfeng Lu:
  A Quantum Kinetic Monte Carlo Method for Quantum Many-Body Spin Dynamics.
• 
  Edward G. Phillips, John N. Shadid, Eric C. Cyr:
  Scalable Preconditioners for Structure Preserving Discretizations of Maxwell Equations in First Order Form.
• 
  Jean-Frédéric Gerbeau, Damiano Lombardi, Eliott Tixier:
  A Moment-Matching Method to Study the Variability of Phenomena Described by Partial Differential Equations.
• 
  Kevin T. Joyce, Johnathan M. Bardsley, Aaron Luttman:
  Point Spread Function Estimation in X-Ray Imaging with Partially Collapsed Gibbs Sampling.
• 
  Georgios Arampatzis, Daniel Wälchli, Panagiotis Angelikopoulos, Stephen Wu, Panagiotis E. Hadjidoukas, Petros Koumoutsakos:
  Langevin Diffusion for Population Based Sampling with an Application in Bayesian Inference for Pharmacodynamics.
• 
  Colin Ponce, David Bindel, Panayot S. Vassilevski:
  A Nonlinear Algebraic Multigrid Framework for the Power Flow Equations.
• 
  Xuping Xie, Muhammad Mohebujjaman, Leo G. Rebholz, Traian Iliescu:
  Data-Driven Filtered Reduced Order Modeling of Fluid Flows.
• 
  Lars König, Jan Rühaak, Alexander Derksen, Jan Lellmann:
  A Matrix-Free Approach to Parallel and Memory-Efficient Deformable Image Registration.
• 
  Xiaofeng Yang, Haijun Yu:
  Efficient Second Order Unconditionally Stable Schemes for a Phase Field Moving Contact Line Model Using an Invariant Energy Quadratization Approach.
• 
  Bo Zhang, Ruming Zhang:
  An FFT-based Algorithm for Efficient Computation of Green's Functions for the Helmholtz and Maxwell's Equations in Periodic Domains.
•