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, Guillermo Vigueras, Taha 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.
• 
  Qiya Hu, Haiyang Zhang:
  Substructuring Preconditioners for the Systems Arising from Plane Wave Discretization of Helmholtz Equations.
• 
  Cécile Piret:
  A Radial Basis Function based Frames Strategy for Bypassing the Runge Phenomenon.
• 
  Charles-Edouard Bréhier, Gilles Vilmart:
  High Order Integrator for Sampling the Invariant Distribution of a Class of Parabolic Stochastic PDEs with Additive Space-Time Noise.
• 
  Alexandra Tcheng, Jean-Christophe Nave:
  A Fast-marching Algorithm for Nonmonotonically Evolving Fronts.
• 
  Sergiy Zhuk, Tigran T. Tchrakian, Stephen Moore, Rodrigo H. Ordóñez-Hurtado, Robert Shorten:
  On Source-Term Parameter Estimation for Linear Advection-Diffusion Equations with Uncertain Coefficients.
• 
  Jie Shen, Yingwei Wang:
  Müntz-Galerkin Methods and Applications to Mixed Dirichlet-Neumann Boundary Value Problems.
• 
  Christopher A. Wong:
  Bilinear Quadratures for Inner Products.
• 
  Daniele Bigoni, Allan Peter Engsig-Karup, Youssef M. Marzouk:
  Spectral Tensor-Train Decomposition.
• 
  Ricardo Delgadillo, Jianfeng Lu, Xu Yang:
  Gauge-Invariant Frozen Gaussian Approximation Method for the Schrödinger Equation with Periodic Potentials.
• 
  Nicolas Crouseilles, Hélène Hivert, Mohammed Lemou:
  Numerical Schemes for Kinetic Equations in the Anomalous Diffusion Limit. Part II: Degenerate Collision Frequency.
• 
  Yeonjong Shin, Dongbin Xiu:
  Correcting Data Corruption Errors for Multivariate Function Approximation.
• 
  Ruipeng Li, Yuanzhe Xi, Eugene Vecharynski, Chao Yang, Yousef Saad:
  A Thick-Restart Lanczos Algorithm with Polynomial Filtering for Hermitian Eigenvalue Problems.
• 
  Daniel Ruprecht, Robert Speck:
  Spectral Deferred Corrections with Fast-wave Slow-wave Splitting.
• 
  Silvia Bonettini, Federica Porta, Valeria Ruggiero:
  A Variable Metric Forward-Backward Method with Extrapolation.
• 
  Simon Etter:
  Parallel ALS Algorithm for Solving Linear Systems in the Hierarchical Tucker Representation.

Computational Methods in Science and Engineering

• 
  Yunfeng Xiong, Zhenzhu Chen, Sihong Shao:
  An Advective-Spectral-Mixed Method for Time-Dependent Many-Body Wigner Simulations.
• 
  Paris Perdikaris, Daniele Venturi, George E. Karniadakis:
  Multifidelity Information Fusion Algorithms for High-Dimensional Systems and Massive Data sets.
• 
  Lingfei Li, Gongqiu Zhang:
  Option Pricing in Some Non-Lévy Jump Models.
• 
  Weiqiang Chen, Hui Ji, Yanfei You:
  An Augmented Lagrangian Method for ℓ₁-Regularized Optimization Problems with Orthogonality Constraints.
• 
  Haijian Yang, Chao Yang, Shuyu Sun:
  Active-Set Reduced-Space Methods with Nonlinear Elimination for Two-Phase Flow Problems in Porous Media.
• 
  Arta A. Jamshidi, Warren B. Powell:
  A Recursive Local Polynomial Approximation Method Using Dirichlet Clouds and Radial Basis Functions.

Software and High-Performance Computing

• 
  J. E. Bunder, Anthony J. Roberts, Ioannis G. Kevrekidis:
  Accuracy of Patch Dynamics with Mesoscale Temporal Coupling for Efficient Massively Parallel Simulations.
• 
  Christoph Riesinger, Tobias Neckel, Florian Rupp:
  Solving Random Ordinary Differential Equations on GPU Clusters using Multiple Levels of Parallelism.
• 
  Alex Townsend, Heather Wilber, Grady B. Wright:
  Computing with Functions in Spherical and Polar Geometries I. The Sphere.
• 
  Mark F. Adams, Jed Brown, Matthew G. Knepley, Ravi Samtaney:
  Segmental Refinement: A Multigrid Technique for Data Locality.

Volume 38, Number 5, 2016

Methods and Algorithms for Scientific Computing

• 
  Stéphane Descombes, Stéphane Lanteri, Ludovic Moya:
  Locally Implicit Discontinuous Galerkin Time Domain Method for Electromagnetic Wave Propagation in Dispersive Media Applied to Numerical Dosimetry in Biological Tissues.
• 
  Matthew J. Reynolds, Alireza Doostan, Gregory Beylkin:
  Randomized Alternating Least Squares for Canonical Tensor Decompositions: Application to A PDE With Random Data.
• 
  Charles L. Epstein, Michael O'Neil:
  Smoothed Corners and Scattered Waves.
• 
  Chunwan Lv, Chuanju Xu:
  Error Analysis of a High Order Method for Time-Fractional Diffusion Equations.
• 
  Thomas Dunst, Andreas Prohl:
  The Forward-Backward Stochastic Heat Equation: Numerical Analysis and Simulation.
• 
  Haijian Yang, Feng-Nan Hwang, Xiao-Chuan Cai:
  Nonlinear Preconditioning Techniques for Full-Space Lagrange-Newton Solution of PDE-Constrained Optimization Problems.
• 
  Paul G. Constantine, Carson Kent, Tan Bui-Thanh:
  Accelerating Markov Chain Monte Carlo with Active Subspaces.
• 
  Jianyu Pan, Michael K. Ng, Hong Wang:
  Fast Iterative Solvers for Linear Systems Arising from Time-Dependent Space-Fractional Diffusion Equations.
• 
  Ralf Zimmermann, Karen Willcox:
  An Accelerated Greedy Missing Point Estimation Procedure.
• 
  Zhimin Peng, Yangyang Xu, Ming Yan, Wotao Yin:
  ARock: An Algorithmic Framework for Asynchronous Parallel Coordinate Updates.
• 
  Axel Klawonn, Martin J. Kühn, Oliver Rheinbach:
  Adaptive Coarse Spaces for FETI-DP in Three Dimensions.
• 
  Delyan Kalchev, Chak Shing Lee, Umberto Villa, Yalchin Efendiev, Panayot S. Vassilevski:
  Upscaling of Mixed Finite Element Discretization Problems by the Spectral AMGe Method.
• 
  Kirsty L. Brown, Igor Gejadze, Alison Ramage:
  A Multilevel Approach for Computing the Limited-Memory Hessian and its Inverse in Variational Data Assimilation.
• 
  Martin J. Gander, Yingxiang Xu:
  Optimized Schwarz Methods for Model Problems with Continuously Variable Coefficients.
• 
  Daming Yuan, Juan Cheng, Chi-Wang Shu:
  High Order Positivity-Preserving Discontinuous Galerkin Methods for Radiative Transfer Equations.
• 
  Yuanzhe Xi, Yousef Saad:
  Computing Partial Spectra with Least-Squares Rational Filters.
• 
  Jiequan Li, Zhifang Du:
  A Two-Stage Fourth Order Time-Accurate Discretization for Lax-Wendroff Type Flow Solvers I. Hyperbolic Conservation Laws.
• 
  Wanrong Cao, Fanhai Zeng, Zhongqiang Zhang, George E. Karniadakis:
  Implicit-Explicit Difference Schemes for Nonlinear Fractional Differential Equations with Nonsmooth Solutions.
• 
  Jie Du, Chi-Wang Shu:
  A High Order Stable Conservative Method for Solving Hyperbolic Conservation Laws on Arbitrarily Distributed Point Clouds.
• 
  Matteo Parsani, Mark H. Carpenter, Travis C. Fisher, Eric J. Nielsen:
  Entropy Stable Staggered Grid Discontinuous Spectral Collocation Methods of any Order for the Compressible Navier-Stokes Equations.
• 
  Benjamin Peherstorfer, Karen Willcox, Max D. Gunzburger:
  Optimal Model Management for Multifidelity Monte Carlo Estimation.
• 
  Martin J. Gander, Hui Zhang:
  Optimized Schwarz Methods with Overlap for the Helmholtz Equation.
• 
  Vít Dolejsí, Alexandre Ern, Martin Vohralík:
  hp-Adaptation Driven by Polynomial-Degree-Robust A Posteriori Error Estimates for Elliptic Problems.
• 
  Kui Du:
  On Well-Conditioned Spectral Collocation and Spectral Methods by the Integral Reformulation.
• 
  Jia Zhao, Xiaofeng Yang, Jun Li, Qi Wang:
  Energy Stable Numerical Schemes for a Hydrodynamic Model of Nematic Liquid Crystals.
• 
  Cun Mu, Yuqian Zhang, John Wright, Donald Goldfarb:
  Scalable Robust Matrix Recovery: Frank-Wolfe Meets Proximal Methods.
• 
  Kathrin Smetana, Anthony T. Patera:
  Optimal Local Approximation Spaces for Component-Based Static Condensation Procedures.

Computational Methods in Science and Engineering

• 
  Yat Tin Chow, Kazufumi Ito, Jun Zou:
  Analysis on a Nonnegative Matrix Factorization and Its Applications.
• 
  Michal Kocvara, Sudaba Mohammed:
  Primal-Dual Interior Point Multigrid Method for Topology Optimization.
• 
  Jiangyong Hou, Meilan Qiu, Xiaoming He, Chaohua Guo, Mingzhen Wei, Baojun Bai:
  A Dual-Porosity-Stokes Model and Finite Element Method for Coupling Dual-Porosity Flow and Free Flow.
• 
  Gary R. Marple, Alex H. Barnett, Adrianna Gillman, Shravan K. Veerapaneni:
  A Fast Algorithm for Simulating Multiphase Flows Through Periodic Geometries of Arbitrary Shape.
• 
  Rony Touma, Ujjwal Koley, Christian Klingenberg:
  Well-Balanced Unstaggered Central Schemes for the Euler Equations with Gravitation.
• 
  Grady I. Lemoine:
  Three-Dimensional Mapped-Grid Finite Volume Modeling of Poroelastic-Fluid Wave Propagation.
• 
  Saifon Chaturantabut, Christopher A. Beattie, Serkan Gugercin:
  Structure-Preserving Model Reduction for Nonlinear Port-Hamiltonian Systems.
• 
  Leonardo Zepeda-Núñez, Hongkai Zhao:
  Fast Alternating BiDirectional Preconditioner for the 2D High-Frequency Lippmann-Schwinger Equation.
• 
  Athanasios C. Antoulas, Ion Victor Gosea, Antonio Cosmin Ionita:
  Model Reduction of Bilinear Systems in the Loewner Framework.

Software and High-Performance Computing

• 
  Patrick Sanan, Sascha M. Schnepp, Dave A. May:
  Pipelined, Flexible Krylov Subspace Methods.
• 
  Carsten Burstedde, Johannes Holke:
  A Tetrahedral Space-Filling Curve for Nonconforming Adaptive Meshes.
• 
  Ray S. Tuminaro, Mauro Perego, Irina K. Tezaur, Andrew G. Salinger, Stephen F. Price:
  A Matrix Dependent/Algebraic Multigrid Approach for Extruded Meshes with Applications to Ice Sheet Modeling.
• 
  Stephan C. Kramer, Johannes Hagemann, Lutz Künneke, Jan Lebert:
  Parallel Statistical Multiresolution Estimation for Image Reconstruction.
• 
  Emmanuel Agullo, Luc Giraud, Pablo Salas, Mawussi Zounon:
  Interpolation-Restart Strategies for Resilient Eigensolvers.
• 
  Nicholas J. Higham, Samuel D. Relton:
  Estimating the Largest Elements of a Matrix.

SPECIAL SECTION

• 
  Hans De Sterck, Chris Johnson, Lois Curfman McInnes:
  Special Section on Two Themes: CSE Software and Big Data in CSE.
• 
  Thomas Engels, Dmitry Kolomenskiy, Kai Schneider, Jörn Sesterhenn:
  FluSI: A Novel Parallel Simulation Tool for Flapping Insect Flight Using a Fourier Method with Volume Penalization.
• 
  Andrew T. T. McRae, Gheorghe-Teodor Bercea, Lawrence Mitchell, David A. Ham, Colin J. Cotter:
  Automated Generation and Symbolic Manipulation of Tensor Product Finite Elements.
• 
  Miklós Homolya, David A. Ham:
  A Parallel Edge Orientation Algorithm for Quadrilateral Meshes.
• 
  Y. Wang, Jon Karl Sigurdsson, Paul J. Atzberger:
  Fluctuating Hydrodynamics Methods for Dynamic Coarse-Grained Implicit-Solvent Simulations in LAMMPS.
• 
  Paul T. Bauman, Roy H. Stogner:
  GRINS: A Multiphysics Framework Based on the libMesh Finite Element Library.
• 
  Martin Berzins, Jacqueline C. Beckvermit, Todd Harman, Andrew Bezdjian, Alan Humphrey, Qingyu Meng, John A. Schmidt, Charles A. Wight:
  Extending the Uintah Framework through the Petascale Modeling of Detonation in Arrays of High Explosive Devices.
• 
  Robert J. Harrison, Gregory Beylkin, Florian A. Bischoff, Justus A. Calvin, George I. Fann, Jacob Fosso-Tande, Diego Galindo, Jeff R. Hammond, Rebecca Hartman-Baker, Judith C. Hill, Jun Jia, Jakob S. Kottmann, Miao-Jung Yvonne Ou, Junchen Pei, Laura E. Ratcliff, Matthew G. Reuter, Adam C. Richie-Halford, Nichols A. Romero, Hideo Sekino, William A. Shelton, Bryan E. Sundahl, W. Scott Thornton, Edward F. Valeev, Álvaro Vázquez-Mayagoitia, Nicholas Vence, Takeshi Yanai, Yukina Yokoi:
  MADNESS: A Multiresolution, Adaptive Numerical Environment for Scientific Simulation.
• 
  Michael Lange, Lawrence Mitchell, Matthew G. Knepley, Gerard J. Gorman:
  Efficient Mesh Management in Firedrake Using PETSc DMPlex.
• 
  Weiqun Zhang, Ann S. Almgren, Marcus Day, Tan Nguyen, John Shalf, Didem Unat:
  BoxLib with Tiling: An Adaptive Mesh Refinement Software Framework.
• 
  Ralf Deiterding, Margarete O. Domingues, Sônia M. Gomes, Kai Schneider:
  Comparison of Adaptive Multiresolution and Adaptive Mesh Refinement Applied to Simulations of the Compressible Euler Equations.
• 
  René Milk, Stephan Rave, Felix Schindler:
  pyMOR - Generic Algorithms and Interfaces for Model Order Reduction.
• 
  Markus Huber, Björn Gmeiner, Ulrich Rüde, Barbara I. Wohlmuth:
  Resilience for Massively Parallel Multigrid Solvers.
• 
  Janine C. Bennett, Ankit Bhagatwala, Jacqueline H. Chen, Ali Pinar, Maher Salloum, C. Seshadhri:
  Trigger Detection for Adaptive Scientific Workflows Using Percentile Sampling.
• 
  Nathan Yonkee, James C. Sutherland:
  PoKiTT: Exposing Task and Data Parallelism on Heterogeneous Architectures for Detailed Chemical Kinetics, Transport, and Thermodynamics Calculations.
• 
  Stefano Zampini:
  PCBDDC: A Class of Robust Dual-Primal Methods in PETSc.
• 
  Eric C. Cyr, John N. Shadid, Raymond S. Tuminaro:
  Teko: A Block Preconditioning Capability with Concrete Example Applications in Navier-Stokes and MHD.
• 
  Amanda Bienz, Robert D. Falgout, William Gropp, Luke N. Olson, Jacob B. Schroder:
  Reducing Parallel Communication in Algebraic Multigrid through Sparsification.
• 
  Pieter Ghysels, Xiaoye S. Li, François-Henry Rouet, Samuel Williams, Artem Napov:
  An Efficient Multicore Implementation of a Novel HSS-Structured Multifrontal Solver Using Randomized Sampling.
• 
  Carmen Campos, José E. Román:
  Parallel Krylov Solvers for the Polynomial Eigenvalue Problem in SLEPc.
• 
  Karl Rupp, Philippe Tillet, Florian Rudolf, Josef Weinbub, Andreas Morhammer, Tibor Grasser, Ansgar Jüngel, Siegfried Selberherr:
  ViennaCL - Linear Algebra Library for Multi- and Many-Core Architectures.
• 
  Léopold Cambier, Pierre-Antoine Absil:
  Robust Low-Rank Matrix Completion by Riemannian Optimization.
• 
  Michael Steinlechner:
  Riemannian Optimization for High-Dimensional Tensor Completion.
• 
  Per-Gunnar Martinsson, Sergey Voronin:
  A Randomized Blocked Algorithm for Efficiently Computing Rank-revealing Factorizations of Matrices.
• 
  Xiao Liu, Jianlin Xia, Maarten V. de Hoop:
  Parallel Randomized and Matrix-Free Direct Solvers for Large Structured Dense Linear Systems.
• 
  Yuxin Chen, David E. Keyes, Kody J. H. Law, Hatem Ltaief:
  Accelerated Dimension-Independent Adaptive Metropolis.
• 
  Eran Treister, Javier S. Turek, Irad Yavneh:
  A Multilevel Framework for Sparse Optimization with Application to Inverse Covariance Estimation and Logistic Regression.
• 
  Arif M. Khan, Alex Pothen, Md. Mostofa Ali Patwary, Nadathur Rajagopalan Satish, Narayanan Sundaram, Fredrik Manne, Mahantesh Halappanavar, Pradeep Dubey:
  Efficient Approximation Algorithms for Weighted b-Matching.
• 
  George M. Slota, Kamesh Madduri, Sivasankaran Rajamanickam:
  Complex Network Partitioning Using Label Propagation.
• 
  Tom Peterka, Hadrien Croubois, Nan Li, Esteban Rangel, Franck Cappello:
  Self-Adaptive Density Estimation of Particle Data.
• 
  Bo Xiao, George Biros:
  Parallel Algorithms for Nearest Neighbor Search Problems in High Dimensions.
• 
  Woohyuk Choi, Sumin Hong, Won-Ki Jeong:
  Vispark: GPU-Accelerated Distributed Visual COmputing Using Spark.
• 
  William B. March, Bo Xiao, Chenhan D. Yu, George Biros:
  ASKIT: An Efficient, Parallel Library for High-Dimensional Kernel Summations.
• 
  Elizabeth R. Jessup, Pate Motter, Boyana Norris, Kanika Sood:
  Performance-Based Numerical Solver Selection in the Lighthouse Framework.
• 
  James Kestyn, Eric Polizzi, Ping Tak Peter Tang:
  Feast Eigensolver for Non-Hermitian Problems.

Volume 38, Number 6, 2016

Methods and Algorithms for Scientific Computing

• 
  Victorita Dolean, Martin J. Gander, Walid Kheriji, Felix Kwok, Roland Masson:
  Nonlinear Preconditioning: How to Use a Nonlinear Schwarz Method to Precondition Newton's Method.
• 
  Wei Guo, Yingda Cheng:
  A Sparse Grid Discontinuous Galerkin Method for High-Dimensional Transport Equations and Its Application to Kinetic Simulations.
• 
  Linzhang Lu, Teng Wang, Yueh-Cheng Kuo, Ren-Cang Li, Wen-Wei Lin:
  A Fast Algorithm For Fast Train Palindromic Quadratic Eigenvalue Problems.
• 
  Christoph Hofer, Ulrich Langer, Ioannis Toulopoulos:
  Discontinuous Galerkin Isogeometric Analysis of Elliptic Diffusion Problems on Segmentations with Gaps.
• 
  Ole Løseth Elvetun, Bjørn Fredrik Nielsen:
  PDE-Constrained Optimization with Local Control and Boundary Observations: Robust Preconditioners.
• 
  Sven Groß, Thomas Ludescher, Maxim A. Olshanskii, Arnold Reusken:
  Robust Preconditioning for XFEM Applied to Time-Dependent Stokes Problems.
• 
  Jie Chen:
  How Accurately Should I Compute Implicit Matrix-Vector Products When Applying the Hutchinson Trace Estimator?
• 
  Gil Ariel, Seong Jun Kim, Richard Tsai:
  Parareal Multiscale Methods for Highly Oscillatory Dynamical Systems.
• 
  Gennady Y. Kulikov, Maria V. Kulikova:
  Estimating the State in Stiff Continuous-Time Stochastic Systems within Extended Kalman Filtering.
• 
  Simone Cacace, Fabio Camilli:
  A Generalized Newton Method for Homogenization of Hamilton-Jacobi Equations.
• 
  Jingya Chang, Yannan Chen, Liqun Qi:
  Computing Eigenvalues of Large Scale Sparse Tensors Arising from a Hypergraph.
• 
  Giancarlo Sangalli, Mattia Tani:
  Isogeometric Preconditioners Based on Fast Solvers for the Sylvester Equation.
• 
  Huibin Chang, Yifei Lou, Michael K. Ng, Tieyong Zeng:
  Phase Retrieval from Incomplete Magnitude Information via Total Variation Regularization.
• 
  Tan Bui-Thanh:
  Construction and Analysis of HDG Methods for Linearized Shallow Water Equations.
• 
  Maojun Li, Fengyan Li, Zhen Li, Liwei Xu:
  Maximum-Principle-Satisfying and Positivity-Preserving High Order Central Discontinuous Galerkin Methods for Hyperbolic Conservation Laws.
• 
  Lukas Einkemmer, Alexander Ostermann:
  Overcoming Order Reduction in Diffusion-Reaction Splitting. Part 2: Oblique Boundary Conditions.
• 
  Lina Song, Haiyan Su, Xinlong Feng:
  Recovery-Based Error Estimator for Stabilized Finite Element Method for the Stationary Navier-Stokes Problem.
• 
  Eric Joseph Hall, Håkon Hoel, Mattias Sandberg, Anders Szepessy, Raúl Tempone:
  Computable Error Estimates for Finite Element Approximations of Elliptic Partial Differential Equations with Rough Stochastic Data.
• 
  Konstantinos Gourgoulias, Markos A. Katsoulakis, Luc Rey-Bellet:
  Information Metrics For Long-Time Errors in Splitting Schemes For Stochastic Dynamics and Parallel Kinetic Monte Carlo.
• 
  Andrea Cangiani, Emmanuil H. Georgoulis, Irene Kyza, Stephen Metcalfe:
  Adaptivity and Blow-Up Detection for Nonlinear Evolution Problems.
• 
  Bogdan Opanchuk, Simon Kiesewetter, Peter D. Drummond:
  Parallel Optimized Sampling for Stochastic Equations.
• 
  Juan Kuntz, Michela Ottobre, Guy-Bart Stan, Mauricio Barahona:
  Bounding Stationary Averages of Polynomial Diffusions via Semidefinite Programming.
• 
  Eduard Bader, Mark Kärcher, Martin A. Grepl, Karen Veroy:
  Certified Reduced Basis Methods for Parametrized Distributed Elliptic Optimal Control Problems with Control Constraints.

Computational Methods in Science and Engineering

• 
  Stephan Schmidt, Eddie Wadbro, Martin Berggren:
  Large-Scale Three-Dimensional Acoustic Horn Optimization.
• 
  J. R. Peterson, Jim E. Morel, Jean C. Ragusa:
  Residual Monte Carlo for the One-Dimensional Particle Transport Equation.
• 
  Miroslav Kuchta, Magne Nordaas, Joris C. G. Verschaeve, Mikael Mortensen, Kent-André Mardal:
  Preconditioners for Saddle Point Systems with Trace Constraints Coupling 2D and 1D Domains.
• 
  Moritz Lang, Jörg Stelling:
  Modular Parameter Identification of Biomolecular Networks.
• 
  Edward G. Phillips, John N. Shadid, Eric C. Cyr, Howard C. Elman, Roger P. Pawlowski:
  Block Preconditioners for Stable Mixed Nodal and Edge finite element Representations of Incompressible Resistive MHD.

Software and High-Performance Computing

• 
  Jennifer A. Scott, Miroslav Tuma:
  Preconditioning of Linear Least Squares by Robust Incomplete Factorization for Implicitly Held Normal Equations.
• 
  Ariful Azad, Grey Ballard, Aydin Buluç, James Demmel, Laura Grigori, Oded Schwartz, Sivan Toledo, Samuel Williams:
  Exploiting Multiple Levels of Parallelism in Sparse Matrix-Matrix Multiplication.
• 
  Emmanuel Gobet, José G. López-Salas, Plamen Turkedjiev, Carlos Vázquez:
  Stratified Regression Monte-Carlo Scheme for Semilinear PDEs and BSDEs with Large Scale Parallelization on GPUs.
• 
  Martin Schreiber, Tobias Neckel, Hans-Joachim Bungartz:
  Evaluation of an Efficient Stack-RLE Clustering Concept for Dynamically Adaptive Grids.
• 
  Alexander Heinlein, Axel Klawonn, Oliver Rheinbach:
  A Parallel Implementation of a Two-Level Overlapping Schwarz Method with Energy-Minimizing Coarse Space Based on Trilinos.
• 
  Martin D. Schatz, Robert A. van de Geijn, Jack Poulson:
  Parallel Matrix Multiplication: A Systematic Journey.