Publications

Peer Reviewed Journal Articles (Google Scholar)

  • R. Bourgeois, D. Lee, “GP-MOOD: A positivity-preserving high-order finite volume method for hyperbolic conservation laws,” Journal of Computational Physics, 471 (2022), 111603
  • R. Yarza, N. Lopez, A. Murguia-Berthier, R. Everson, A. Antony, M. MacLeod, M. Soares-Furtado, D. Lee, E. Ramirez-Ruiz, “Hydrodynamics and survivabilty during post-main-sequence planetary engulfment,” in revision, arXiv:2203.11227
  • A. Dubey, K. Weide, J. O’Neal, A. Dhruv, S. Couch, A. Harris, T. Klosterman, R. Jain, J. Rudi, B. Messer, M. Pajkos, J. Carlson, R. Chu, M. Wahib, S. Chawdhary, P. Ricker, D. Lee, K. Antypas, K. Riley, Ch. Daley, M. Ganapathy, F. Timmes, D. Townsley, M. Vanella, J. Bachan, P. Rich, S. Kumar, E. Endeve, W. Hix, A. Mazzacapa, T. Papatheodore, “Flash-X: A multiphysics simulation software instrument,” Software X, 19 (2022), 101168
  • Y. Lee, D. Lee, A. Reyes, “A recursive system-free single-step temporal dis- cretization method for finite difference methods,” Journal of Computational Physics: X, 12 (2021), 100098
  • Y. Lee, D. Lee, “A single-step third-order temporal discretization with Jacobian- free and Hessian-free formulations for finite difference methods,” Journal of Computational Physics, 427 (2021) 110063
  • H. Ge, X. Zhang, C. Li, and D. Lee, “A Global Nonhydrostatic Atmospheric Mod- el with a Mass and Energy Conserving Vertically Implicit-Correction (VIC) Scheme,” The Astrophysical Journal, 898, 2020: 130
  • S. Reeves, D. Lee, A. Reyes, C. Graziani, P. Tzeferacos,”An application of Gaussian Process Modeling for high-order accurate adaptive mesh refinement prolongation”, submitted to CAMCoS, In press https://arxiv.org/abs/2003.08508
  • A. Reyes, D. Lee, C. Graziani, P. Tzeferacos, “A variable high-order shock-capturing finite difference method with GP-WENO”,  Journal of Computational Physics, 381 (2019), 189-217
  • M. Bhishek, N. Brummell, D. Lee, “The Rise of a Magnetic Flux Tube in a Background Field: Solar Helicity Selection Rules”, The Astrophysical Journal Letters, 859 (2018)
  • A. Reyes, D. Lee, C. Graziani, P. Tzeferacos, “A New Class of High-Order Methods for Fluid Dynamics Simulations using Gaussian Process Modeling”, Journal of Scientific Computing, 76 (2018): 443 – 480
  • J. P. Rabanal, D. Lee, “On the dynamic stability of a price dispersion model using gradient dynamics”, Journal of Economics and Control, vol. 84 (2917), 32-42
  • D. Lee, H. Faller, A. Reyes, “The Piecewise Cubic Method (PCM) for computational fluid dynamics”, Journal of Computational Physics, vol. 341, pp. 230-257 (Apr 5, 2017)
  • J. Meinecke, P. Tzeferacos, A. R. Bell, R. Bingham, E. M. Churazov, R. Crowston, H. Doyle, R. P. Drake, M. Koenig, Y. Kuramitsu, C. C. Kuranz, D. Lee, M. J. MacDonald, C. D. Murphy, H.-S. Park, A. Pelka, A. Ravasio, B. Reville, Y. Sakawa, W. C. Wan, N. C. Woolsey, R. Yurchak, F. Miniati, A. A. Schekochihin, D. Q. Lamb, G. Gregori, “Developed turbulence and nonlinear amplification of magnetic fields in laboratory  and astrophysical plasmas”, Proc. Nat. Acad. Sci. vol. 112, no. 27, pp. 8211-8215, 2015, http://www.pnas.org/cgi/doi/10.1073/pnas.1502079112
  • C. Graziani, P. Tzeferacos, D. Lee, D. Q. Lamb, K. Weide, M. Fatenejad, and J. Miller, “The Biermann Catastrophe in Numerical Magnetohydrodynamics”, The Astrophysical Journal, vol. 802, pp. 43-65, 2015, http://iopscience.iop.org/0004-637X/802/1/43/pdf/0004-637X_802_1_43.pdf
  • P. Tzeferacos, M. Fatenejad, N. Flocke, C. Graziani, G. Gregori, D. Q. Lamb, D. Lee, J. Meinecke, A. Scopatz, and K. Weide. “FLASH MHD simulations of experiments that study shock-generated magnetic fields”, High Energy Density Physics, 2014,  http://www.sciencedirect.com/science/article/pii/S1574181814000779
  • Meinecke, J., Doyle, H., Miniati, F., Bell, A. R., Bingham, R., Crowston, R., Drake, R. P., Fatenejad, M., Koenig, M., Kuramitsu, Y., Kurantz, C., Lamb, D. Q., Lee, D., MacDonald, M. J., Murphy, C. D., Park, H.-S., Pelka, A., Ravasio, A., Sakawa, Y., Schekochihin, A. A., Scopatz, A., Tzeferacos, P., Wan, W. C., Woolsey, N. C., Reville, B., and Gregori, G., “Turbulent amplification of magnetic fields in laboratory laser-produced shock waves”, Nature Physics, doi:10.1038/nphys2978, 2014, http://www.nature.com/nphys/journal/vaop/ncurrent/full/nphys2978.html, http://www.nature.com/nphys/journal/vaop/ncurrent/pdf/nphys2978.pdf
  • Ruszkowski, M., Brüggen, M., Lee, D., Shin, M. S., “Impact of Magnetic Fields on Ram Pressure Stripping in Disk Galaxies”, The Astrophysical Journal, 778:75–88, Mar. 20, 2014 http://dx.doi.org/10.1088/0004-637X/784/1/75
  • Dubey, A., Weide, K., Lee, D., Bachan, J., Daley, C., Olofin, S., Taylor, N., Rich, P. M., Reid, L., “Ongoing Verification of a Multiphysics Community Code: FLASH”, Software: Practice & Experience, Sept. 3, 2013 http://onlinelibrary.wiley.com/doi/10.1002/spe.2220/abstract
  • Dubey, A., Antypas, K., Calder, A. C., Daley, C., Fryxell, B., Gallagher, J. B., Lamb, D. Q., Lee, D., Olson, K., Reid, L. B., Rich, P., Ricker, P. M., Riley, K. M., Rosner, R., Siegel, A., Taylor, N. T., Weide, K., Timmes, F. X., Vladimirova, N., ZuHone, J., “Evolution of FLASH, a multi-physics scientific simulation code for high-performance computing”, International Journal of High Performance Computing, Oct. 3, 2013 http://hpc.sagepub.com/content/early/2013/10/02/1094342013505656.abstract
  • Murawski, K., Ballai, I., Srivastava, A. K., Lee, D., “Three-dimensional Numerical Model of Magnetohydrodynamic-gravity Waves and Vortices in the Solar Atmosphere”, Monthly Notices of the Royal Astronomical Society, Sept. 23, 2013, http://dx.doi.org/10.1093/mnras/stt1653
  • Li, S., Fisher, R., García-Berro, E., Tzeferacos, P., Jordan, G., Lee, D., Loren-Aguilar, P., Cremer, P., Behrends, J. , “The Post-Merger Magnetized Evolution of White Dwarf Binaries: The Double-Degenerate Channel of Sub-Chandrasekhar Type Ia Supernovae and the Formation of Magnetized White Dwarfs”, The Astrophysical Journal, 773:136–149, Aug. 20, 2013 http://dx.doi.org/10.1088/0004-637X/773/2/136
  • Lee, D., “A Solution Accurate, Ecient and Stable Unsplit Staggered Mesh Scheme for Three Dimensional Magnetohydrodynamics”, Journal of Computational Physics, 243:269–292, Mar. 22, 2013 http://dx.doi.org/10.1016/j.jcp.2013.02.049
  • ZuHone, J., Markevitch, M., Ruszkowski, M., Lee, D., “Cold Fronts and Gas Sloshing in Galaxy Clusters with Anisotropic Thermal Conduction”, The Astrophysical Journal, 762:69–85, Jan. 10, 2013 http://dx.doi.org/10.1088/0004-637X/762/2/69
  • Yang, H.-Y., Ruszkowski, M., Ricker, P. M., Zweibel, E., Lee, D., “The Fermi Bubbles: Supersonic AGN Jets with Anisotropic Cosmic Ray Diusion”, The Astrophysical Journal, 761:185–203, Dec. 20, 2012, http://dx.doi.org/10.1088/0004-637X/761/2/185
  • Fatenejad, M., Bell, A. R., Benuzzi-Mounaix, A., Crowston, R., Drake, P. R., Flocke, N., Gregori, G., Koenig, M., Krauland, C., Lamb, D., Lee, D., Marques, J. R., Meinecke, J., Miniati, F., Murphy, C. D., Park, H.-S., Pelka, A., Ravasio, A., Remington, B., Reville, B., Scopatz, A., Tzeferacos, P., Weide, K., Woolsey, N., Young, R., Yurchak, R., “Modeling HEDLA Magnetic Field Generation Experiments on Laser Facilities”, High Energy Density Physics, 9:172–177, Nov. 28, 2012 http://dx.doi.org/10.1016/j.hedp.2012.11.002
  • Scopatz, A., Fatenejad, M., Flocke, N., Gregori, G., Koenig, M., Lamb, D., Lee, D., Meinecke, J., Ravasio, A., Tzeferacos, P., Weide, K., Yurchak, R., “FLASH Hydrodynamics Simulations of Experiments to Explore the Generation of Cosmological Magnetic Fields”, High Energy Density Physics, 9:75–81, Nov. 1, 2012 http://dx.doi.org/10.1016/j.hedp.2012.10.003
  • Tzeferacos, P., Fatenejad, M., Flocke, N., Gregori, G., Lamb, D., Lee, D., Meinecke, J., Scopatz, A., Weide, K., “FLASH Magnetohydrodynamics Simulations of Laser-Driven Shock Experiments”, High Energy Density Physics, 8:322–328, Sept. 1, 2012 http://dx.doi.org/10.1016/j.hedp.2012.08.001
  • Murawski, K., Lee, D., “Godunov-type Algorithms for Numerical Modeling of Solar Corona”, Control and Cybernetics, 41:35–56, Mar. 2012
  • ZuHone, J., Markevitch, M., Lee, D., “Sloshing of the Magnetized Cool Gas in the Cores of Galaxy Clusters”, The Astrophysical Journal, 743:16–49, Dec. 10, 2011, http://dx.doi.org/10.1088/0004-637X/743/1/16
  • Ruszkowski, M., Lee, D., Brüggen, M., Parrish, I., Oh, P., “Cosmological MHD Simulations of Cluster Formation with Anisotropic Thermal Conduction”, The Astrophysical Journal, 740:81–93, Oct. 20, 2011, http://dx.doi.org/10.1088/0004-637X/740/2/81
  • Kritsuk, A., Nordlund, A., Collins, D., Padoan, P., Norman, M., Abel, T., Banerjee, R., Federrath, C., Flock, M., Lee, D., Li, P., Müller, W., Teyssier, R., Ustyugov, S., Vogel, C., Xu, H., “Comparing Numerical Methods for Isothermal Magnetized Supersonic Turbulence”, Journal of Astrophysics, 737:13–29, Aug. 10, 2011 http://dx.doi.org/10.1088/0004-637X/737/1/13
  • Lee, D., Xia, G., Daley, C., Dubey, A., Gopal, S., Graziani, C., Lamb, D., Weide, K., “Progress in Development of High-Energy-Density Physics Capabilities in FLASH’s Unsplit Staggered Mesh MHD Solver”, An International Journal of Astronomy, Astrophysics and Space Science, 336:157–162, Mar. 9, 2011 http://dx.doi.org/10.1007/s10509-011-0654-5
  • Murawski, K., Lee, D., “Numerical Methods of Solving Equations of Hydrodynamics from Perspectives for the Code FLASH”, Bulletin of the Polish Academy of Sciences-Technical Sciences, 59:81–91, Mar. 2011 http://dx.doi.org/10.2478/v10175-011-0012-3
  • Zaqarashvili T. V., Murawski, K., Khodachenko, M., K., Lee, D., “The Excitation of 5-min Oscillations in the Solar Corona”, Astronomy & Astrophysics, 529, A85, Jan. 28, 2011 http://dx.doi.org/10.1051/0004-6361/201015384
  • Konkol, P., Murawski, K., Lee, D., Weide, K., “Numerical Simulation of Attenuation of the Fundamental Slow Magnetoacoustic Standing Mode in a Gravitationally Stratified Solar Coronal Arcade”, Astronomy & Astrophysics, A34, Jun. 2, 2010 http://dx.doi.org/10.1051/0004- 6361/201014367
  • Lee, D., Deane, A., “An Unsplit Staggered Mesh Scheme for Multidimensional Magnetohydrodynamics”, Journal of Computational Physics, 228:952–975, Sept. 12, 2009, http://dx.doi.org/10.1016/j.jcp.2008.08.026

Refereed Conference Proceedings

  1. J. Dooling, Y. Lee, M. Borland, A. Grannan, C. Graziani, R. Linberg, G. Navrotski, N. Cook, D. Lee, “Collimation and machine protection for low emittance rings,” International Beam Instrumentation Conference (IBIC’22), Kraków, Poland, Sept 2022
  2. J. Dooling, Y. Lee, M. Borland, A. Grannan, C. Graziani, R. Linberg, G. Navrotski, N. Cook, D. Lee, “Hydrodynamic and beam dynamic simulations of ultra-low emittance whole beam dumps in the advanced photon source storage ring,” North American Particle Accelerator Conference (NAPAC’22), Albuquerque, NM, Aug 2022
  3. R. Bourgeois, D. Lee, “GP-MOOD: A positive-preserving high-order finite volume method for hyperbolic conservation laws,” International Astronomical Union 362 Sumposium:  Predictive Power of Computational Astrophysics as a Discovery Tool, Nov 2021
  4. J. Dooling, B. Borland, A. Grannan, C. Graziani, R. Lindberg, G. Navrotski, D. Lee, Y. Lee, N. Cook, “Simulations of Beam Strikes on Advanced Photon Source Upgrade Collimators using FLASH, MARS, and elegant,” the 12th Int. Particle Accelerator Conf. (IPAC’21), Campinas, Brazil, May 2021
  5. B. Manek, N. Brummell, D. Lee, “Solar Hemispheric Helicity Rules: A New Explanation,” Dynamics of the Sun and Stars Honoring the Life and Work of Michael J. Thompson, Editors: Monteiro, M.J.P.F.G., Garcia, R.A., Christensen-Dalsgaard, J., McIntosh, S.W. (Eds.) Springer (Dec 18 2020)
  6. S. Reeves, D. Lee, A. Singh, K. Verma, “A Gaussian Process Upsampling Model for Improvements in Optical Character Recognition,” Bebis G. et al. (eds) Advances in Visual Computing. ISVC 2020. Lecture Notes in Computer Science, vol 12510. Springer, Cham (Dec 7 2020)
  7. D. Lee, A. Reyes, C. Graziani, P. Tzeferacos, “New High-order Methods using Gaussian Processes for Computational Fluid Dynamics Simulations”, Astronum 2016, Journal of Physics: Conference Series 837 (2017)
  8. C. Graziani, P. Tzeferacos, D. Lee, D. Q. Lamb, K. Weide, M. Fatenejad, J. Miller, “The Biermann catastrophe of numerical MHD”, Astronum 2015, Journal of Physics: Conference Series 719 (2016)
  9. J. Meinecke, A. R. Bell, R. Bingham, R. Crowston, H. Doyle, R. P. Drake, M. Fatenejad, M. Koenig, Y. Kuramitsu, C. Kuranz, D. Q. Lamb, D. Lee, M. J. MacDonald, F. Miniati, C. D. Murphy, H.-S. Park, A. Pelka, A. Ravasio, B. Reville, Y. Sakawa, A. A. Schekochihin, A. Scopatz, P. Tzeferacos, W. C. Wan, N. C. Woolsey, and G. Gregori, “Magnetic Field Characterisation of Laser-produced Plasmas”, Conference on Laser Energetics, Yokohama, Japan, Apr. 22 – Apr. 24, 2015
  10. Lee, D., “A Solution Accurate, Efficient and Stable 3D Unsplit Staggered Mesh MHD Solver in FLASH”, Proceeding of the 6th International Conference on Numerical Modeling of Space Plasma Physics, Astronum, 2012
  11. Lee, D., Gopal, S., Mohapatra, P., “An Implicit Solver on A Parallel Block-Structured Adaptive Mesh Grid for FLASH”, Proceeding of the 6th International Conference on Numerical Modeling of Space Plasma Physics, Astronum, 2011
  12. Lee, D., “An Upwind Slope Limiter for PPM that Preserves Monotonicity in Magnetohydrodynamics”, Proceeding of the 5th International Conference on Numerical Modeling of Space Plasma Physics, Astronum, 2010
  13. Lee, D., Dubey A., Olson, K., Weide, K., Antypas, A., “Exploiting the Extensibility of the FLASH code Architecture for Unsplit Time Integration”, Proceeding of the 4th International Conference on Numerical Modeling of Space Plasma Physics, Astronum, 2009
  14. Lee, D., Deane, A., Federrath, C., “A New Multidimensional Unsplit MHD Solver in FLASH3, Proceeding of the 3rd International Conference on Numerical Modeling of Space Plasma Physics”, Astronum, 2008
  15. Lee, D., Deane, A., “A Parallel Unsplit Staggered Mesh Algorithm for Magnetohydrodynamics”, Proceeding of the 17th International Conference on Parallel Computational Fluid Dynamics, 2005
  16. Lee, D., Leishman, G., and Baeder, J., “A Nonlinear Indicial Method for The Calculation of Unsteady Airloads”, Proceeding of the 59th Annual Forum and Technology Display of the American Helicopter Society International, 2003