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David Trebotich, Mark F. Adams, Sergi Molins, Carl I. Steefel, Chaopeng Shen, "High-Resolution Simulation of Pore-Scale Reactive Transport Processes Associated with Carbon Sequestration", Computing in Science and Engineering, December 2014, 16:22-31, doi: 10.1109/MCSE.2014.77

Anshu Dubey, Ann Almgren, John Bell, Martin Berzins, Steve Brandt, Greg Bryan, Phillip Colella, Daniel Graves, Michael Lijewski, Frank Löffler, Brian O’Shea, Erik Schnetter, Brian Van Straalen, Klaus Weide, "A Survey of High Level Frameworks in Block-Structured Adaptive Mesh Refinement Packages", Journal of Parallel and Distributed Computing, 2014, 74:3217-3227, doi: 10.1016/j.jpdc.2014.07.001

Anshu Dubey, Steve R. Brandt, Rich Brower, Merle Giles, Paul Hovland, Donald Q. Lamb, Frank Löffler, Boyana Norris, Brian W. O'Shea, Claudio Rebbi, Marc Snir, Rajiv Thakur, Petros Tzeferacos, "Software Abstractions and Methodologies for HPC Simulation Codes on Future Architectures", Journal of Open Research Software, 2014, 2(1):e14, doi:

Anshu Dubey, Brian Van Straalen, "Experiences from Software Engineering of Large Scale AMR Multiphysics Code Frameworks", Journal of Open Research Software 2(1):e7 Special Collection: Working towards Sustainable Software for Science: Practice and Experiences, July 9, 2014, doi:

Sergi Molins, David Trebotich, Li Yang, Jonathan B. Ajo-Franklin, Terry J. Ligocki, Chaopeng Shen and Carl Steefel, "Pore-Scale Controls on Calcite Dissolution Rates from Flow-through Laboratory and Numerical Experiments", Environmental Science and Technology, May 27, 2014,


Daniel T. Graves, Phillip Colella, David Modiano, Jeffrey Johnson, Bjorn Sjogreen, Xinfeng Gao, "A Cartesian Grid Embedded Boundary Method for the Compressible Navier Stokes Equations", Communications in Applied Mathematics and Computational Science, December 23, 2013,

In this paper, we present an unsplit method for the time-dependent
  compressible Navier-Stokes equations in two and three dimensions.
  We use a a conservative, second-order Godunov algorithm.
  We use a Cartesian grid, embedded boundary method to resolve complex
  boundaries.  We solve for viscous and conductive terms with a
  second-order semi-implicit algorithm.  We demonstrate second-order
  accuracy in solutions of smooth problems in smooth geometries and
  demonstrate robust behavior for strongly discontinuous initial
  conditions in complex geometries.

C. Steefel, S. Molins, D. Trebotich, "Pore scale processes associated with subsurface CO2 injection and sequestration”, Reviews in Mineralogy and Geochemistry", Reviews in Mineralogy and Geochemistry, November 1, 2013,

A. Dubey, K. Antypas, A.C. Calder, C. Daley, Fryxell, J.B. Gallagher, D.Q. Lamb, D. Lee, K. Olson, L.B., P. Rich, P.M. Ricker, K.M. Riley, Rosner, A. Siegel, N.T. Taylor, F.X. Timmes, N. Vladimirova, K. Weide, J. ZuHone, "Evolution of FLASH, a Multiphysics Scientific Simulation Code for High Performance Computing", International Journal of High Performance Computing Applications, 2013,

A. Dubey, K. Weide, D. Lee, J. Bachan, C. Daley, S. Olofin, N. Taylor, P.M. Rich, L.B. Reid, "Ongoing Verification of a Multiphysics Community Code: FLASH", Software: Practice and Experience, 2013,

A. Dubey, A.C. Calder, C. Daley, R.T. Fisher, C. Graziani, G.C. Jordan, D.Q. Lamb, L.B. Reid, D.M. Townsley, K. Weide, "Pragmatic optimizations for better scientific utilization of large supercomputers", International Journal of High Performance Computing Applications, 2013, 27:360-373, doi: 0.1177/1094342012464404

S.L. Cornford, D.F. Martin, D.T. Graves, D.F. Ranken, A.M. Le Brocq, R.M. Gladstone, A.J. Payne, E.G. Ng, W.H. Lipscomb, "Adaptive mesh, finite volume modeling of marine ice sheets", Journal of Computational Physics, 232(1):529-549, 2013,


B. Kallemov, G. H. Miller, S. Mitran and D. Trebotich, "Calculation of Viscoelastic Bead-Rod Flow Mediated by a Homogenized Kinetic Scale with Holonomic Constraints", Molecular Simulation, 2012, doi: 10.1080/08927022.2011.654206

G. H. Miller and D. Trebotich, "An Embedded Boundary Method for the Navier-Stokes Equations on a Time-Dependent Domain", Communications in Applied Mathematics and Computational Science, 7(1):1-31, 2012,

S. Molins, D. Trebotich, C. I. Steefel and C. Shen, "An Investigation of the Effect of Pore Scale Flow on Average Geochemical Reaction Rates Using Direct Numerical Simulation", Water Resour. Res., 48(3) W03527, DOI:10.1029/2011WR011404, 2012,

P.S. Li, D.F. Martin, R.I. Klein, and C.F. McKee, "A Stable, Accurate Methodology for High Mach Number, Strong Magnetic Field MHD Turbulence with Adaptive Mesh Refinement: Resolution and Refinement Studies", The Astrophysical Journal Supplement Series, 2012,

A. Dubey, C. Daley, J. ZuHone, P. M. Ricker, K. Weide, C. Graziani, "Imposing a Lagrangian particle framework on an Eulerian hydrodynamics infrastructure in FLASH", ApJ Supplement, 2012, 201:27, doi: 10.1088/0067-0049/201/2/27

Chalence Safranek-Shrader, Meghann Agarwal, Christoph Federrath, Anshu Dubey, Miloš Milosavljević, Volker Bromm, "Star formation in the first galaxies – I. Collapse delayed by Lyman–Werner radiation", Monthly Notices of the Royal Astronomical Society, 2012, 426:1159--1177, doi: 10.1111/j.1365-2966.2012.21852.x

Christopher Daley, Marcos Vanella, Anshu Dubey, Klaus Weide, Elias Balaras, "Optimization of multigrid based elliptic solver for large scale simulations in the FLASH code", Concurrency and Computation: Practice and Experience, 2012, 24:2346--2361, doi: 10.1002/cpe.2821

R. Latham, C. Daley, W. Liao, K. Gao, R. Ross, A. Dubey, A. Choudhary, "A Case Study for Scientific I/O: Improving the FLASH Astrophysics Code", Computational Science and Discovery, 2012, 5:015001,

U. Shumlak, J. Chadney, R.P. Golingo, D.J. Den Hartog, M.C. Hughes, S.D. Knecht, W. Lowrie, V.S. Lukin, B.A. Nelson, R.J. Oberto, J.L. Rohrbach, M.P. Ross, G.V. Vogman, "The Sheared-Flow Stabilized Z-Pinch", Fusion Science and Technology, 61 (1t), 119, 2012,


B. Wang, G.H. Miller, and P. Colella, "A Particle-in-Cell Method with Adaptive Phase-Space Remapping for Kinetic Plasmas", SIAM J. Sci. Comput, 2011,

Q. Zhang, "High-Order, Multidimensional, and Conservative Coarse-Fine Interpolation for Adaptive Mesh Refinement", Comput. Methods Appl. Mech. Engrg., 200(45-46):3159-3168 (2011), 2011,

G.V. Vogman, U. Shumlak, "Deconvolution of Stark Broadened Spectra for Multi-point Density Measurements in a Flow Z-Pinch", Review of Scientific Instruments, 82 (10) 103504, October 2011, doi: 10.1063/1.3647975

F. Miniati and D.F. Martin, "Constrained-transport Magnetohydrodynamics with Adaptive Mesh Refinement in CHARM", The Astrophysical Journal Supplement Series, 195(1):5, 2011,

P. McCorquodale and P. Colella, "A High-Order Finite-Volume Method for Conservation Laws on Locally Refined Grids", Communications in Applied Mathematics and Computational Science, Vol. 6 (2011), No. 1, 1-25, 2011,

P. Colella, M.R. Dorr, J.A.F. Hittinger, and D.F. Martin, "High-Order Finite-Volume Methods in Mapped Coordinates", Journal of Computational Physics, 230(8):2952-2976 (2011), 2011,

A. Dubey, K. Antypas, C. Daley, "Parallel algorithms for moving Lagrangian data on block structured Eulerian meshes", Parallel Computing, 2011, 37:101 - 113, doi: DOI: 10.1016/j.parco.2011.01.001

B. Kallemov, G. H. Miller, S. Mitran and D. Trebotich, "Multiscale Rheology: New Results for the Kinetic Scale", NSTI-Nanotech 2011, Vol. 2, pp. 575-578 (2011), 2011,

B. Kallemov, G. H. Miller and D. Trebotich, "A Higher-Order Accurate Fluid-Particle Algorithm for Polymer Flows", Molecular Simulation, 37(8):738-745 (2011), 2011,


Q. Zhang, H. Johansen and P. Colella, "A Fourth-Order Accurate Finite-Volume Method with Structured Adaptive Mesh Refinement for Solving the Advection-Diffusion Equation", SIAM Journal on Scientific Computing, Vol. 34, No. 2. (2012), B179, doi:10.1137/110820105, 2010,

R.K. Crockett, P. Colella, and D.T. Graves, "A Cartesian Grid Embedded Boundary Method for Solving the Poisson and Heat Equations with Discontinuous Coefficients in Three Dimensions", Journal of Computational Physics , 230(7):2451-2469, 2010,

Caroline Gatti-Bono, Phillip Colella and David Trebotich, "A Second-Order Accurate Conservative Front-Tracking Method in One Dimension", SIAM J. Sci. Comput., 31(6):4795-4813, 2010,

Schwartz, P., and Colella P., "A Second-Order Accurate Method for Solving the Signed Distance Function Equation", Communications in Applied Mathematics and Computational Science, Vol. 5 (2010), No. 1, 81-97, 2010,

D. Lee, G. Xia, C. Daley, A. Dubey, S. Gopal, C. Graziani, D.Q. Lamb, K. Weide, "Progress in Development of HEDP Capabilities in FLASH s Unsplit Staggered Mesh MHD Solver", HEDLA 2010: Astrophysics and Space Science Special Issue, 2010,

Prateek Sharma, Phillip Colella, and Daniel F. Martin, "Numerical Implementation of Streaming Down the Gradient: Application to Fluid Modeling of Cosmic Rays", SIAM Journal on Scientific Computing , Vol 32(6), 3564-3583, 2010,

Q. Zhang and P. L.-F. Liu, "Handling Solid-Fluid Interfaces for Viscous Flows: Explicit Jump Approximation vs. Ghost Cell Approaches", Journal of Computational Physics, 229(11):4225-4246, 2010,

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U. Shumlak, J. M. Blakely, B.J. Chan, R.P. Golingo, S.D. Knecht, B.A. Nelson, R.J. Oberto, M.R. Sybouts, G.V. Vogman, D.J. Den Hartog, "Stabilization in the ZaP flow Z-Pinch", Journal of Fusion Energy, 28 (2), pg 208--211, November 2009,

U. Shumlak, C.S. Adams, J.M. Blakely, B.J. Chan, R.P. Golingo, S.D. Knecht, B.A. Nelson, R.J. Oberto, M.R. Sybouts, G.V. Vogman, "Equilibrium, Flow Shear and Stability Measurements in the Z-pinch", Nuclear Fusion, 49 (7), 075039, July 2009,

Bronis R de Supinski, Sadaf Alam, David H Bailey, Laura, Chris Daley, Anshu Dubey, Todd Gamblin, Dan, Paul D Hovland, Heike Jagode, Karen Karavanic, Marin, John Mellor-Crummey, Shirley Moore, Boyana, Leonid Oliker, Catherine Olschanowsky, Philip C, Martin Schulz, Sameer Shende, Allan Snavely, Wyatt, Mustafa Tikir, Jeff Vetter, Pat Worley, Nicholas Wright, "Modeling the Office of Science ten year facilities plan: The PERI Architecture Tiger Team", Journal of Physics: Conference Series, 2009, 180:012039, doi: 10.1088/1742-6596/180/1/012039

A. Nonaka, D. Trebotich, G. H. Miller, D. T. Graves, and P. Colella, "A Higher-Order Upwind Method for Viscoelastic Flow", Comm. App. Math. and Comp. Sci., 4(1):57-83, 2009,

B. Kallemov, G. H. Miller and D. Trebotich, "A Duhamel Approach for the Langevin Equations with Holonomic Constraints", Molecular Simulation, 35(6):440-447, 2009,

A. Dubey, K. Antypas, M.K. Ganapathy, L.B., K. Riley, D. Sheeler, A. Siegel, K. Weide, "Extensible Component Based Architecture for FLASH, A Massively Parallel, Multiphysics Simulation Code", Parallel Computing, 2009, 35:512-522, doi: DOI: 10.1016/j.parco.2009.08.001


Colella, P. and Sekora, M. D., "A Limiter for PPM that Preserves Accuracy at Smooth Extrema", Submitted to Journal of Computational Physics, 2008,

D. Trebotich, G. H. Miller and M. D. Bybee, "A Penalty Method to Model Particle Interactions in DNA-laden Flows", J. Nanosci. Nanotechnol., 8(7):3749-3756, 2008,

Martin, D.F., Colella, P., and Graves, D.T., "A Cell-Centered Adaptive Projection Method for the Incompressible Navier-Stokes Equations in Three Dimensions", Journal of Computational Physics Vol 227 (2008) pp. 1863-1886., 2008, LBNL 62025,

R. Fisher, S. Abarzhi, K. Antypas, S.M. Asida, Calder, F. Cattaneo, P. Constantin, A. Dubey, Foster, J.B. Gallagher, M.K. Ganapathy, C.C. Glendenin, L., D.Q. Lamb, S. Needham, M. Papka, T. Plewa, L.B. Reid, P. Rich, K. Riley, D. Sheeler, "Terascale Turbulence Computation on BG/L Using the FLASH3 Code", IBM Journal of Research and Development, 2008, 52:127--137,

D. T. Graves, D Trebotich, G. H. Miller, P. Colella, "An Efficient Solver for the Equations of Resistive MHD with Spatially-Varying Resistivity", Journal of Computational Physics Vol 227 (2008) pp.4797-4804., 2008,

A. Dubey, L.B. Reid, R. Fisher, "Introduction to FLASH 3.0, with application to supersonic turbulence", Physica Scripta, 2008, T132,

Miniati, F. and Colella, P., "A Modified higher-Order Godunov's Scheme for Stiff Source Conservative Hydrodynamics", Journal of Computational Physics Vol. 224 (2007), pp. 519-538., 2008, LBNL 59902,


Katherine A. Yelick, Dan Bonachea, Wei-Yu Chen, Phillip Colella, Kaushik Datta, Jason Duell, Susan L. Graham, Paul Hargrove, Paul N. Hilfinger, Parry Husbands, Costin Iancu, Amir Kamil, Rajesh Nishtala, Jimmy Su, Michael L. Welcome, Tong Wen, "Productivity and performance using partitioned global address space languages", Parallel Symbolic Computation (PASCO), 2007,

D. Trebotich, "Toward a Solution to the High Weissenberg Number Problem", Proc. Appl. Math. Mech. 7(1):2100073-2100074, 2007,

D. Trebotich, "Simulation of Biological Flow and Transport in Complex Geometries using Embedded Boundary / Volume-of-Fluid Methods", Journal of Physics: Conference Series 78 (2007) 012076, 2007,

G. H. Miller and D. Trebotich, "Toward a Mesoscale Model for the Dynamics of Polymer Solutions", J. Comput. Theoret. Nanosci. 4(4):797-801, 2007,

D. Trebotich, G. H. Miller and M. D. Bybee, "A Hard Constraint Algorithm to Model Particle Interactions in DNA-laden Flows", Nanoscale and Microscale Thermophysical Engineering 11(1):121-128, 2007,

Miniati, F. and Colella, P., "Block Structured Adaptive Mesh and Time Refinement for Hybrid, Hyperbolic + N-body Systems", Journal of Computational Physics Vol. 227 (2007), pp. 400-430., 2007,

McCorquodale, P., Colella, P., Balls, G.T., and Baden, S.B., "A Local Corrections Algorithm for Solving Poisson's Equation in Three Dimensions", Communications in Applied Mathematics and Computational Science Vol. 2, No. 1 (2007), pp. 57-81., 2007,


Katherine Yelick, Paul Hilfinger, Susan Graham, Dan Bonachea, Jimmy Su, Amir Kamil, Kaushik Datta, Phillip Colella, and Tong Wen, "Parallel Languages and Compilers: Perspective from the Titanium Experience", The International Journal Of High Performance Computing Applications, June 16, 2006, 21,

We describe the rationale behind the design of key features of Titanium—an explicitly parallel dialect of JavaTM for high-performance scientific programming—and our experiences in building applications with the language. Specifically, we address Titanium’s Partitioned Global Address Space model, SPMD parallelism support, multi-dimensional arrays and array-index calculus, memory management, immutable classes (class-like types that are value types rather than reference types), operator overloading, and generic programming. We provide an overview of the Titanium compiler implementation, covering various parallel analyses and optimizations, Titanium runtime technology and the GASNet network communication layer. We summarize results and lessons learned from implementing the NAS parallel benchmarks, elliptic and hyperbolic solvers using Adaptive Mesh Refinement, and several applications of the Immersed Boundary method. 

Colella, P., Graves, D.T., Keen, B.J., Modiano, D., "A Cartesian Grid Embedded Boundary Method for Hyperbolic Conservation Laws", Journal of Computational Physics. Vol. 211 (2006), pp. 347-366., 2006, LBNL 56420,

Schwartz, P., Barad, M., Colella, P., Ligocki, T.J., "A Cartesian Grid Embedded Boundary Method for the Heat Equation and Poisson's Equation in Three Dimensions", Journal of Computational Physics. Vol. 211 (2006), pp. 531-550., 2006, LBNL 56607,

D. Trebotich, "Modeling Complex Biological Flows in Multi-Scale Systems Using the APDEC Framework", Journal of Physics: Conference Series 46 (2006) 316-321., 2006,

E.-J. Rijkhorst, T. Plewa, A. Dubey, G. Mellema, "Hybrid characteristics: 3D radiative transfer for parallel adaptive mesh refinement hydrodynamics", Astronomy and Astrophysics, 2006, 452:907-920, doi: 10.1051/0004-6361:20053401

M. Comparato, V. Antonuccio, U. Becciani, A. Dubey, T. Plewa, D. Sheeler, "FLY-FLASH: A Software Interface for Adaptive Mesh Refinement - Treecode Simulations .", Memorie della Societa Astronomica Italiana Supplement, 2006, 9:448-+,

Gatti-Bono, C., Colella, P., "An Anelastic Allspeed Projection Method for Gravitationally Stratified Flows", J. Comput. Phys. Vol. 216 (2006), pp. 589-615, 2006, LBNL 57158,


Schwartz, P., Adalsteinsson, D., Colella, P., Arkin, A.P., Onsum, M., "A Tightly Coupled Particle-Fluid Model for DNA-laden Flows in Complex Microscale Geometries", Proc. Nat. Acad. Sci. Vol. 102 (2005), pp. 11151-11156, 2005,

Martin, D.F., Colella, P., Anghel, M., Alexander, F., "Adaptive Mesh Refinement for Multiscale Nonequilibrium Physics", Computing in Science and Engineering Vol.7 N.3 (2005), pp. 24-31, 2005,

Barad, M., Colella, P., "A Fourth-Order Accurate Local Refinement Method for Poisson's Equation", J. Comput. Phys. Vol.209 (2005), pp. 1-18, 2005,

Trebotich, D., Colella, P., Miller, G.H., "A Stable and Convergent Scheme for Viscoelastic Flow in Contraction Channels", J. Comput. Phys. Vol.205 (2005), pp. 315-342, 2005,

Crockett, R.K., Colella, P., Fisher, R., Klein, R.I., McKee, C.F., "An Unsplit, Cell-Centered Godunov Method for Ideal MHD", J. Comput. Phys. Vol.203 (2005), pp. 422-448, 2005,

Trebotich, D., Miller, G.H., Colella, P., Graves, D.T., Martin, D.F., Schwartz, P.O., "A Tightly Coupled Particle-Fluid Model for DNA-Laden Flows in Complex Microscale Geometries", Computational Fluid and Solid Mechanics 2005, pp. 1018-1022, Elsevier (K. J. Bathe editor), 2005,


McCorquodale, P., Colella, P., Grote, D., Vay, J.L., "A Node-Centered Local Refinement Algorithm for Poisson's Equation in Complex Geometries", J. Comput. Phys. Vol.201 (2004), pp. 34-60, 2004,

Vay, J.L., Colella, P., Friedman, A., Grote, D.P., McCorquodale, P., Serafini, D.B., "Implementations of Mesh Refinement Schemes for Particle-in-Cell Plasma Simulations", Computer Physics Communications Vol.164 (2004), pp. 297-305, 2004,

Samtaney, R., Colella, P., Jardin, S.C., Martin, D.F., "3D Adaptive Mesh Refinement Simulations of Pellet Injection in Tokamaks", Computer Physics Communications Vol.164 (2004), pp. 220-228, 2004,

Vay, J.L., Colella, P., Kwan, J.W., McCorquodale, P., Serafini, D.B., Friedman, A., Grote, D.P., Westenskow, G., Adam, J.C., "Application of Adaptive Mesh Refinement to Particle-in-Cell Simulations of Plasmas and Beams", Physics of Plasmas Vol.11 (2004), pp. 2928-2934, 2004,

Miller, G.H., "Minimal Rotationally Invariant Bases for Hyperelasticity", SIAM J. Appl. Math Vol.64, No. 6 (2004), pp. 2050-2075, 2004,


Miller, G.H., "An Iterative Riemann Solver for Systems of Hyperbolic Conservation Laws, with Application to Hyperelastic Solid Mechanics", J. Comp. Physics Vol.193 (2003), pp. 198-225, 2003,


Miller, G.H., Colella, P., "A Conservative Three-Dimensional Eulerian Method for Coupled Solid-Fluid Shock Capturing", J. Comput. Phys. Vol.183 (2002), pp. 26, 2002,

Balls, G., Colella, P., "A Finite Difference Domain Decomposition Method Using Local Corrections for the Solution of Poissons's Equation", J. Comput. Phys. Vol.180 (2002), pp. 25, 2002,

Vay, J.L., Colella, P., McCorquodale, P., Van Straalen, B., Friedman, A., Grote, D.P., "Mesh Refinement for Particle-in-Cell Plasma Simulations: Applications to and Benefits for Heavy Ion Fusion", Laser and Particle Beams. Vol.20 N.4 (2002), pp. 569-575, 2002,


Miller, G.H., Colella, P., "A Higher-Order Godunov Method for Elastic-Plastic Flow in Solids", J. Comput. Phys. Vol.167 (2001), pp. 131, 2001,

Trebotich, D., P. Colella, P., "A Projection Method for Incompressible Viscous Flow on Moving Quadrilateral Grids", J. Comput. Phys. Vol.166 (2001), pp. 191-217, 2001,

A. Dubey, D. Tessera, "Redistribution Strategies in portable parallel FFTs", Concurrency, Practice and Experience, 2001, 13:209-220,

McCorquodale, P., Colella, P., Johansen, H., "A Cartesian Grid Embedded Boundary Method for the Heat Equation on Irregular Domains", J. Comput. Phys. Vol.173 (2001), pp. 620-635, 2001,


Propp, R., Colella, P., Crutchfield, W.Y., Day, M.S., "A Numerical Model for Trickle-Bed Reactors", J. Comput. Phys., 2000, 165:311-333,

Martin D., Colella, P., "A Cell-Centered Adaptive Projection Method for the Incompressible Euler Equations", J. Comput. Phys. Vol.163 (2000), pp. 271-312, 2000,


Colella, P., Dorr, M.R., Wake, D.D., "A Conservative Finite Difference Method for the Numerical Solution of Plasma Fluid Equations", J. Comput. Phys. Vol.149 (1999), pp. 168-193, 1999,

Colella, P., Dorr, M.R., Wake, D.D., "Numerical Solution of Plasma Fluid Equations Using Locally Refined Grids", J. Comput. Phys. Vol.152 (1999), pp. 550-583, 1999,

Colella, P., Pao, K., "A Projection Method for Low Speed Flows", J. Comput. Phys. Vol.149 (1999), pp. 245-269, 1999,

Howell, L.H., Pember, R.B., Colella, P., Fiveland, W.A., Jessee, J.P., "A Conservative Adaptive-Mesh Algorithm for Unsteady, Combined-Mode Heat Transfer Using the Discrete Ordinates Method", Numerical Heat Transfer, Part B: Fundamentals , Vol.35, (1999), pp. 407-430, 1999,

Colella, P., Trebotich, D., "Numerical Simulation of Incompressible Viscous flow in Deforming Domains", Proceedings of the National Academy of Sciences of the United States of America Vol.96, (1999), pp. 5378-5381, 1999,

Sussman, M.M., Almgren, A.S., Bell, J.B., Colella, P., Howell, L.H., Welcome, M., "An Adaptive Level Set Approach for Incompressible Two-Phase Flows", J. Comp. Phys. Vol.148, pp. 81-124, 1999, LBNL 40327,

Y.-N. Young, H. Tufo, A. Dubey, R. Rosner, "On the miscible Rayleigh-Taylor instability: two and three dimensions", Journal of Fluid Mechanics, 1999, 447:377-408,


Johansen, H., Colella, P., "A Cartesian Grid Embedded Boundary Method for Poisson's Equation on Irregular Domains", J. Comput. Physics, Vol.147, No.1, pp. 60-85, November 1998,

Vegas-Landeau, M.A., Propp, R., Patzek, T.W., Colella, P., "A Sequential Semi-Implicit Algorithm for Computing Discontinuous Flows in Porous Media", SPE Journal, June 1998,

Jessee, J.P., Fiveland, W.A., Howell, L.H., Colella, P., Pember, R., "An Adaptive Mesh Refinement Algorithm for the Radiative Transport Equation", J. Comput. Phys. Vol.139, (1998), pp. 380-398, 1998,

Pember, R.P., Howell, L.H., Bell, J.B., Colella, P., Crutchfield, W.Y., Fiveland, W.A., Jessee, J.P., "An Adaptive Projection Method For Unsteady Low-Mach Number Combustion", Comb. Sci. Tech., 1998, 140:123-168,

Almgren, A.S., Bell, J.B., Colella, P., Howell, L.H., Welcome, M.L., "A Conservative Adaptive Projection Method for the Variable Density Incompressible Navier-Stokes Equations", J. Comp. Phys., 1998, 142:1-46, LBNL 39075,


Almgren, A.S., Bell, J.B., Colella, P., Marthaler, T., "A Cartesian Grid Projection Method for the Incompressible Euler Equations in Complex Geometries", SIAM J. Sci. Comp., 1997, 18(5):1289-1309,

Helmsen, J., Colella, P., Puckett, E.G., "Non-Convex Profile Evolution in Two Dimensions Using Volume of Fluids", 1997, LBNL 40693,


Pember, R.B., Bell, J.B., Colella, P., Crutchfield, W.Y., Welcome, M.L., "An Adaptive Cartesian Grid Method for Unsteady Compressible Flow in Irregular Regions", J. Comp. Phys., 1995, 120(2):278-304,

Hilditch, J., Colella, P., "A Front Tracking Method for Compressible Flames in One Dimension", SIAM Journal on Scientific Computing, Vol.16 No.4 (1995), pp. 755-772, 1995,

Chien, K.Y., Ferguson, R.E., Kuhl, A.L., Glaz, H.M., Colella, P., "Inviscid Dynamics of Two-Dimensional Shear Layers", International Journal of Computational Fluid Dynamics, Vol.5 No.1-2, pp. 59+, 1995,

Collins, J.P., Colella, P., Glaz, H.M., "An Implicit-Explicit Eulerian Godunov Scheme for Compressible Flow", J. Comp. Phys., Vol.116 No.2, pp. 195-211, 1995,


A. Dubey, M. Zubair, C.E. Grosch, "A General Purpose Subroutine for Fast Fourier Transform on a Distributed Memory Parallel Machine", Parallel Computing, 1994, 20:1697-1710,

Almgren, A.S., Buttke, T., Colella, P., "A Fast Adaptive Vortex Method In Three Dimensions", J. Comp. Phys., Vol.113 No.2, pp. 177-200, 1994,

Zachary, A.L., Malagoli, A., Colella, P., "A Higher-Order Godunov Method for Multidimensional Ideal Magnetohydrodynamics", SIAM Journal on Scientific Computing, Vol.15 No.2, pp. 263-284, 1994,

Liu, J.C., Colella, P., Peterson, P.F., Schrock, V.E., "Modeling Supersonic Flows Through a Gas-Continuous 2-Fluid Medium", Nuclear Engineering and Design, Vol.146 No.1-3, pp. 337-348, 1994,

Klein, R.I., McKee, C.F., Colella, P., "On the Hydrodynamic Interaction of Shock Waves with Interstellar Clouds .1. Nonradiative Shocks in Small Clouds", Astrophysical Journal, Vol.420 No.1, pp. 213-236, 1994,


A. Dubey, M. Zubair, C.E. Grosch, "Real Fourier Transforms on a Massively Parallel Machine", Computer Systems, Science and Engineering, 1992, 7:243-248,

Chen, X.M., Schrock, V.E., Peterson, P.F., Colella, P., "Gas Dynamics in the Central Cavity of the Hylife-II Reactor", Fusion Technology, Vol.21 No.3, pp. 1520-1524., 1992,

Zachary, A.L., Colella, P., "A Higher-Order Godunov Method for the Equations of Ideal Magnetohydrodynamics", Journal of Computational Physics, Vol.99 No.2, pp. 341-347., 1992,


Henderson L.F., Colella P., Puckett E.G., "On the Refraction of Shock Waves at a Slow Fast Gas Interface", Journal of Fluid Mechanics, Vol.224 MAR:1+., 1991,

Trangenstein J.A., Colella P., "A Higher-Order Godunov Method for Modeling Finite Deformation in Elastic-Plastic Solids", Communications on Pure and Applied Mathematics, Vol.44 No.1, pp. 41-100, 1991,


A. Dubey, M. Zubair, C.E. Grosch, "Computing the Fourier Transform of Real Data on a Hypercube", Journal of Scientific Computing, 1990, 5:293-309,

Kuhl, A.L., Ferguson, R.E., Chien, K.Y., Glowacki, W., Collins, P. Glaz, H., Colella P., "Turbulent Wall Jet in a Mach Reflection Flow", Progress in Aeronautics and Astronautics, Vol.13, pp. 201-232, 1990,

Colella, P., Henderson, L.F., "The von Neumann Paradox for the Diffraction of Weak Shock Waves", Journal of Fluid Mechanics, Vol.213, pp. 71-94., 1990,

Colella, P., "Multidimensional Upwind Methods for Hyperbolic Conservation Laws", J. Comp. Phys., Vol.87 No.1, pp. 171-200, 1990,


Bell, J.B., Colella, P., Glaz, H.M., "A Second-Order Projection Method for the Incompressible Navier Stokes Equations", J. Comp. Phys,, Vol.85 No.2, pp. 257-283., 1989,

Bell, J.B., Colella, P,, Trangenstein, J.A., "Higher Order Godunov Methods for General Systems of Hyperbolic Conservation Laws", Journal of Computational Physics, Vol.82 No.2, pp. 362-397, 1989,

Berger M.J., Colella P., "Local Adaptive Mesh Refinement for Shock Hydrodynamics", J. Comp. Phys., Vol.82 No.1, pp. 64-84, 1989,

Sakurai, A., Henderson, L.F., Takayama, K., Walenta, Z., Colella P., "On the Von Neumann Paradox of Weak Mach Reflection", Fluid Dynamics Research, Vol.4, pp. 333-346, 1989,


Glaz, H.M., Colella, P., Collins, J.P., Ferguson, R.E., "Nonequilibrium Effects in Oblique Shock-Wave Reflection", AIAA Journal, Vol.26, pp. 698-705., 1988,

Hilfinger, P.N., Colella P., "FIDIL: A Language for Scientific Programming", Symbolic Computation: Applications to Scientific Computing, SIAM Frontiers in Applied Mathematics, Vol.5, pp. 97-138, 1988,


Fryxell, B.A., Woodward, P.R., Colella, P., Winkler, K.H., "An Implicit-Explicit Hybrid Method for Lagrangian Hydrodynamics", Journal of Computational Physics, Vol.62, pp. 283-310., 1986,

Glaz, H.M., Colella P., Glass, I.I., Deschambault, R.L., "Mach Reflection from an HE-Driven Blast Wave", Progress in Aeronautics and Astronautics, Vol.106, pp. 388-421., 1986,

Colella, P., Majda, A., Roytburd, V., "Theoretical and Numerical Structure for Reacting Shock Waves", SIAM Journal of Sci. Stat. Computing, Vol.7 No.4, pp. 1059-1080, 1986,


Colella, P., Glaz, H.M., "Efficient Solution Algorithms for the Riemann Problem for Real Gases", J. Comp. Phys., Vol.59 No.2, pp. 264-289., 1985,

  • Download File: A17.pdf (pdf: 565 KB)

Colella, P., "A Direct Eulerian MUSCL Scheme for Gas Dynamics", SIAM Journal for Sci. Stat. Computing, Vol.6 No.1, pp. 104-117., 1985,

  • Download File: A16.pdf (pdf: 716 KB)


Eidelman, S., Colella P., Shreeve, R.P., "Application of the Godunov Method and its Second-Order Extension to Cascade Flow Modeling", AIAA Journal, Vol.22 No.11 (1984), pp. 1609-1615, 1984,

  • Download File: A15.pdf (pdf: 1.1 MB)

Woodward, P.R., Colella, P., "The Numerical Simulation of Two-Dimensional Fluid Flow with Strong Shocks", J. Comp. Phys., Vol.54 No.1 (1984), pp. 115-173, 1984,

Colella P., Woodward, P.R., "The Piecewise Parabolic Method (PPM) for Gas-Dynamical Simulations", J. Comp. Phys., Vol.54 No.1 (1984), pp. 174-201, 1984,


Colella P., "Glimm's Method for Gas Dynamics", SIAM Journal for Sci. Stat. Computing, Vol.3 No.1, pp. 76-110, 1982,

  • Download File: A12.pdf (pdf: 852 KB)


Colella P., Lanford, O.E., "Sample Field Behavior for the Free Markov Random Field", 1973,

  • Download File: B21.pdf (pdf: 903 KB)