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J. Ray's Homepage

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Jaideep Ray's Publications in Books and Journals

  1. K. Lee, J. Ray and C. Safta, "The predictive skill of convolutional neural networks models for for disease forecasting", accepted Public Library of Science, One, June 2021. Download manuscript here. SAND2021-7823J.

  2. P. Blonigan, J Ray and C. Safta, "Forecasting Multi-Wave Epidemics Through Bayesian Inference", accepted, Archives of Computational Mechanics in Engineering, April, 2021. Download manuscript here. SAND2021-5198J.

  3. Y-T Lin, J. Neumann, E. Miller, R. Posner, A. Mallela, C. Safta, J. Ray, G. Thakur, S. Chinthavali and W. Hlavacek, "Daily Forecasting of New Cases for Regional Epidemics of Coronavirus Disease 2019 with Bayesian Uncertainty Quantification", Emerging Infectious Diseases, 27(3):767-778, 2021. Download manuscript here. SAND2021-0568J. For published version, doi:10.3201/eid2703.203364.

  4. C.Safta, J. Ray and K. Sargsyan, "Characterization of Partially Observed Epidemics through Bayesian Inference - Application to COVID-19", Computational Mechanics, 66, 1109-1129, 2020. Download manuscript here. SAND2020-8283J. For published version, doi:10.1007/s00466-020-01897-z.

  5. J. Ray, S. Kieweg, D. Dinzl, B. Carnes, V.G. Weirs, B. Freno, M. Howard, T. Smith, I. Nompelis and G. V. Candler, "Estimation of Inflow Uncertainties in Laminar Hypersonic Double-Cone Experiments", AIAA Journal, 58(10), 4461-4474, 2020. Download manuscript here and the online electronic supplement here. SAND2020-4921J. For published version, doi:10.2514/1.J051609.

  6. J. Ray, L. DeChant, S. Lefantzi, J. Ling and S. Arunajatesan, "Robust Bayesian calibration of a k-e model for compressible jet-in-crossflow simulations", AIAA Journal, 56(12):4893-4909, December 2018. Download manuscript here. SAND2018-7772J. For published version, doi:10.2514/1.J057204.

  7. J. Bao, Z. Hou, J. Ray, M. Huang, L. Swiler and H. Ren "Soil Moisture Estimation Using Tomographic Ground Penetrating Radar in a MCMC- Bayesian Framework", Stochastic Environmental Research and Risk Assessment, 32(8):2213-2231, August 2018. Download manuscript here. SAND2018-7074J. For published version, doi:10.1007/s00477-018-1571-8

  8. H. Ren, J. Ray, Z. Hou, M. Huang, J. Bao and L. Swiler "Bayesian inversion of seismic and electromagnetic data for marine gas reservoir characterization using multi-chain Markov chain Monte Carlo sampling", Journal of Applied Geophysics, 147:68-80, 2017. Download manuscript here. SAND2017-11661J. For published version, doi:10.1016/j.jappgeo.2017.10.004

  9. J. Ray, S. Lefantzi, S. Arunajatesan and L. Dechant, "Learning an eddy viscosity model using shrinkage and Bayesian calibration: A jet-in-crossflow case study", ASCE-ASME Journal of Risk and Uncertainty in Engineering Systems, Part B: Mechanical Engineering, 4(1):011001-011001-10, 2017. Download manuscript here. SAND2017-2412J. For published version, doi:10.1115/1.4037557

  10. V. Yadav, A. M. Michalak, J. Ray and Y. P. Shiga, "A statistical approach for isolating fossil fuel emissions in atmospheric inverse problems", Journal of Geophysical Research - Atmospheres, 121, 2016. Download draft manuscript here. SAND2014-16474J. For published version doi:10.1002/2016JD025642.

  11. M. Huang, J. Ray, Z. Hou, H. Ren, Y Liu and L. Swiler, "On the applicability of surrogate-based MCMC-Bayesian Inversion to the Community Land Model: Case studies at flux tower sites" Journal of Geophysical Research - Atmospheres, 121(13), 2016. Download draft manuscript here . SAND2016-5746J. For published version, doi:10.1002/2015JD024339.

  12. P. Stradzins, B. Harding, C. Lee, J. R. Mayo, J. Ray and R. C. Armstong, "A robust technique to make 2D advection solver tolerant to soft faults", Procedia Computer Science, 80:1917-1926, 2016. Also presented at the International Conference on Computational Science, 2016, San Diego, CA, June 2016. Download draft manuscript here . SAND2016-3208C. For published version doi:10.1016/j.procs.2016.05.505.

  13. J. Ray, S. Lefantzi, S. Arunajatesan and L. Dechant, "Bayesian parameter estimation of a k-epsilon model for accurate jet-in-crossflow simulations", American Institute of Aeronautics and Astronautics Journal, 54(8):2432-2448, 2016. Download draft manuscript here . SAND2016-0826J. For published version, doi:10.2514/1.J054758.

  14. J. Ray, J. Lee, V. Yadav, S. Lefantzi, A.M. Michalak, and B. van Bloemen Waanders, "A sparse reconstruction method for the estimation of multi-resolution emission fields via atmospheric inversion", Geoscientific Model Development, 8, 1259-1273, doi:10.5194/gmd-8-1259-2015, 2015. SAND2014-15988J. Discussions version available doi:10.5194/gmdd-7-5623-2014 .

  15. K. Carlberg, J. Ray and B. van Bloemen Waanders, "Decreasing the temporal complexity for nonlinear, implicit reduced-order models by forecasting", Computer Methods in Applied Mechanics and Engineering , 289(0):79-103, 2015. SAND2014-19077J. Download draft here . Link to the actual paper doi:10.1016/j.cma.2015.02.013

  16. J. Ray, Z. Hou, M. Huang, K. Sargsyan and L. Swiler,"Bayesian calibration of the Community Land Model using surrogates" SIAM Journal on Uncertainty Quantification, 3(1):199-233, 2015; SAND2014-1401J. Download draft here . For published version, doi:10.1137/140957998 .

  17. J. Ray, A. Pinar and C. Seshadhri, "A stopping criterion for Markov chains when generating independent random graphs", accepted Journal of Complex Networks, 2014. SAND2014-1726J. Available here or doi:10.1093/comnet/cnu041. Download draft here .

  18. J. Ray, V. Yadav, A. M. Michalak, B. van Bloemen Waanders and S. A. McKenna, "A multiresolution spatial parameterization for the estimation of fossil-fuel carbon dioxide emissions via atmospheric inversions", Geoscientific Model Development, 7, 1901-1918, 2014. Available here . SAND2013-8688J. Geoscientific Model Development Discussions version (doi:10.5194/gmdd-7-1277-2014) here

  19. K. Kedia, C. Safta, J. Ray, H. N. Najm and A. F. Ghoniem, "A second-order coupled immersed boundary-SAMR construction for chemically reacting flow over heat-conducting Cartesian grid-conforming solid", Journal of Computational Physics, 272:408--428, 2014. SAND2013-6370J. Download draft here . For published version, doi:10.1016/

  20. K. E. Cheng, D. J. Crary, J. Ray and C. Safta, "Structural models used in real-time biosurveillance outbreak detection and outbreak curve isolation from noisy background morbidity levels" in Journal of the American Medical Informatics Association, accepted September 2012. SAND2012-4527J. For published version doi:10.1136/amiajnl-2012-000945

  21. J. Ray, S. A. McKenna, B. van Bloemen Waanders and Y. M. Marzouk, "Bayesian reconstruction of binary media with unresolved fine-scale spatial structures" in Advances in Water Resources , 44:1--19, 2012. Download draft here. SAND2011-5730J. For published version, doi:10.1016/j.advwatres.2012.04.009

  22. S. A. McKenna, J. Ray, Y. Marzouk and B. van Bloemen Waanders, "Truncated multiGaussian fields and effective conductance of binary media", in Advances in Water Resources , 34:617-626, 2011. Also available as Sandia Techical Report SAND2010-8903. For published version doi:10.1016/j.advwatres.2011.02.011

  23. J. Ray, Y. M. Marzouk, and H. N. Najm, "A Bayesian approach for estimating bioterror attacks from patient data", in Statistics in Medicine, 30(2):101-126, 2011. Download draft here. SAND2007-1486J. For published version doi:10.1002/sim.4090

  24. C. Safta, J. Ray and H. N. Najm, "A high-order low-Mach AMR construction for chemically reacting flows", in Journal of Computational Physics, 229:9299-9322, 2010. Download draft here. SAND2010-0398J. For published version doi:10.1016/

  25. J. Ray, R. Armstrong, C. Safta, B.J. Debusschere, B. A. Allan and H. N. Najm, " Computational frameworks for advanced combustion simulations", in Turbulent Combustion Modeling: Advances, New Trends and Perspectives, T. Echekki and E. Mastorakos, Eds, pgs 407-437, Springer, to appear. Download draft here. SAND2009-7346P. For the actual book, click here.

  26. N. Trebon, A. Morris, J. Ray, S. Shende and A. D. Malony, "Performance modeling using component assemblies", Concurrency and Computation: Practice and Experience, 2007, 19(5):685-696. Download draft here.

  27. J. Ray, C. A. Kennedy, S. Lefantzi and H. N. Najm, "Using high-order methods on adaptively refined block-structured meshes - derivatives, interpolations, and filters", SIAM Journal on Scientific Computing, 2007, 29(1):139-181. An older version is available as Sandia Technical Report SAND2005-7981 here. The library of high-order discretizations described in this paper can be downloaded here.

  28. J. C. Lee, H. N. Najm, S. Lefantzi, J. Ray and M. Frenklach, M. Valorani and D. Goussis, "A CSP and Tabulation Based Adaptive Chemistry Model", Combustion Theory and Modeling, 2007, 11(1):73-102.

  29. David E. Bernholdt, Benjamin A. Allan, Robert Armstrong and Felipe Bertrand, Kenneth Chiu, Tamara L. Dahlgren, Kostadin Damevski, Wael R. Elwasif, Thomas G. W. Epperly, Madhusudhan Govindaraju, Daniel S. Katz, James A. Kohl, Manoj Krishnan, Gary Kumfert, J. Walter Larson, Sophia Lefantzi, Michael J. Lewis, Allen D. Malony, Lois C. McInnes, Jarek Nieplocha, Boyana Norris, Steven G. Parker, Jaideep Ray, Sameer Shende, Theresa L. Windus, and Shujia Zhou, "A Component Architecture for High-Performance Scientific Computing", International Journal of High-Performance Computing Application, 2006, 20:162-202.

  30. J. Steensland and J. Ray, "A Partitioner-Centric Model for SAMR Partitioning Trade-Off Optimization : Part I," International Journal of High Performance Computing Applications, 2005, 19(4):409-422.

  31. L. C. McInnes, B. A. Allan, R. Armstrong, S. J. Benson, D. E. Bernholdt, T. L. Dahlgren, L. F. Diachin, M. Krishnan, J. A. Kohl, J. W. Larson, S. Lefantzi, J. Nieplocha, B. Norris, S. G. Parker, J. Ray and S. Zhou, "Parallel PDE-Based Simulations Using the Common Component Architecture." Chapter in Numerical Solution of Partial Differential Equations on Parallel Computers, 2005, Editors: A. M. Bruaset, P. Bjorstad, and A. Tveito, Lecture Notes in Computational Science and Engg., (51), Springer. Download draft here.

  32. Sophia Lefantzi, Jaideep Ray, Christopher A. Kennedy and Habib Najm, "A Component-based Toolkit for Simulating Reacting Flows with High Order Spatial Discretizations on Structured Adaptively Refined Meshes." Progress in Computational Fluid Dynamics, 2005, 5(6):298-315. Download draft version here .

  33. J. Ray and L. Jameson, "Estimation of Shock Induced Vorticity on Irregular Gaseous Interfaces : A Wavelet-based Approach." Shock Waves : An International Journal, 2005, 14(3):147-160.

  34. A. Malony, S. Shende, N. Trebon, J. Ray, R. Armstrong, C. Rasmussen and M. Sottile, "Performance Technology for Parallel and Distributed Component Software." Concurrency and Computation: Practice and Experience, 2005, 17(2-4):117-141.

  35. C. C. Douglas, J. Hu, J. Ray, D. T. Thorn, and R. Tuminaro, "Cache aware multigrid for variable coefficient elliptic problems on adaptive mesh refinement hierarchies, " Numerical Linear Algebra and Applications , 11:173-187, 2004.

  36. Benjamin A. Allan, Robert C. Armstrong, Alicia P. Wolfe, Jaideep Ray, David E. Bernholdt and James A. Kohl, "The CCA Core Specification in a Distributed Memory SPMD Framework," Concurrency : Practice and Experience , 14(5):323-345, 2002.

  37. J.Ray, H.N. Najm, R.B. Milne, K.D. Devine and S. Kempka, "Triple Flame Structure and Dynamics at the Stabilization Point of an Unsteady Lifted Jet Diffusion Flame," Proc. Combust. Inst. 2000, 25(1):219-226.

  38. A.D. Kotelnikov, J. Ray and N.J. Zabusky, "Vortex morphologies on reaccelerated interfaces: visualization, quantification and modeling of one- and two-mode compressible and incompressible environments," Phys. Flds., 2000, 12 (12) : 3245-3264.

  39. J. Ray, R. Samtaney and N.J. Zabusky, "Shock interaction with heavy gaseous elliptic cylinders: Two leeward side shock competition modes and a heuristic model for interfacial circulation deposition at early times," Phys. Flds., 2000, 12(3):707-716.

  40. R. Samtaney, J. Ray and N.J. Zabusky, "Baroclinic circulation generation on shock accelerated slow/fast gas interfaces," Phys. Flds., 1998, 10 (5) : 1271-1230

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