KiT-RT: An Extendable Framework for Radiative Transfer and Therapy

Kusch, Jonas; Schotthöfer, Steffen; Stammer, Pia; Wolters, Jannick; Xiao, Tianbai

doi:10.1145/3630001

Title: KiT-RT: An Extendable Framework for Radiative Transfer and Therapy

Journal Article · 14 December 2023 · ACM Transactions on Mathematical Software

DOI: https://doi.org/10.1145/3630001 · OSTI ID:2283856

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Norwegian University of Life Sciences, Trondheim (Norway)
Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States)
Karlsruhe Institute of Technology (KIT) (Germany); German Cancer Research Center (DKFZ), Heidelberg (Germany); Helmholtz Information and Data Science School for Health (HIDSS4Health), Heidelberg (Germany)
Karlsruhe Institute of Technology (KIT) (Germany)
Chinese Academy of Sciences (CAS), Beijing (China)

Here, in this article, we present Kinetic Transport Solver for Radiation Therapy (KiT-RT), an open-source C++-based framework for solving kinetic equations in therapy applications available at https://github.com/CSMMLab/KiT-RT. This software framework aims to provide a collection of classical deterministic solvers for unstructured meshes that allow for easy extendability. Therefore, KiT-RT is a convenient base to test new numerical methods in various applications and compare them against conventional solvers. The implementation includes spherical harmonics, minimal entropy, neural minimal entropy, and discrete ordinates methods. Solution characteristics and efficiency are presented through several test cases ranging from radiation transport to electron radiation therapy. Due to the variety of included numerical methods and easy extendability, the presented open-source code is attractive for both developers, who want a basis to build their numerical solvers, and users or application engineers, who want to gain experimental insights without directly interfering with the codebase.

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Research Organization:: Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Advanced Scientific Computing Research (ASCR); German Research Foundation (DFG); National Science Foundation of China (NSFC)

Grant/Contract Number:: AC05-00OR22725

OSTI ID:: 2283856

Journal Information:: ACM Transactions on Mathematical Software, Journal Name: ACM Transactions on Mathematical Software Journal Issue: 4 Vol. 49; ISSN 0098-3500

Publisher:: Association for Computing MachineryCopyright Statement

Country of Publication:: United States

Language:: English

References (59)

High-Order Entropy-Based Closures for Linear Transport in Slab Geometry II: A Computational Study of the Optimization Problem Alldredge, Graham W.; Hauck, Cory D.; Tits, André L. SIAM Journal on Scientific Computing, Vol. 34, Issue 4 https://doi.org/10.1137/11084772X	journal	January 2012
On solutions to the Pn equations for thermal radiative transfer McClarren, Ryan G.; Holloway, James Paul; Brunner, Thomas A. Journal of Computational Physics, Vol. 227, Issue 5 https://doi.org/10.1016/j.jcp.2007.11.027	journal	February 2008
The design and application of upwind schemes on unstructured meshes Barth, Timothy; Jespersen, Dennis 27th Aerospace Sciences Meeting https://doi.org/10.2514/6.1989-366	conference	February 2013
Monte Carlo- versus pencil-beam-/collapsed-cone-dose calculation in a heterogeneous multi-layer phantom Krieger, Thomas; Sauer, Otto A. Physics in Medicine and Biology, Vol. 50, Issue 5 https://doi.org/10.1088/0031-9155/50/5/010	journal	February 2005
Measurement of lung density by computed tomography: Implication for radiotherapy. Kohda, Ehiichi; Shigematsu, Naoyuki The Keio Journal of Medicine, Vol. 38, Issue 4 https://doi.org/10.2302/kjm.38.454	journal	January 1989
A Large-Scale CT and PET/CT Dataset for Lung Cancer Diagnosis Li, Ping; Wang, Shuo; Li, Tang The Cancer Imaging Archive https://doi.org/10.7937/TCIA.2020.NNC2-0461	dataset	January 2020
Stanford University Unstructured (SU²): An open-source integrated computational environment for multi-physics simulation and design Palacios, Francisco; Alonso, Juan; Duraisamy, Karthikeyan 51st AIAA Aerospace Sciences Meeting including the New Horizons Forum and Aerospace Exposition https://doi.org/10.2514/6.2013-287	conference	January 2013
A flux reconstruction kinetic scheme for the Boltzmann equation Xiao, Tianbai Journal of Computational Physics, Vol. 447 https://doi.org/10.1016/j.jcp.2021.110689	journal	December 2021
Inverse Radiotherapy Treatment Planning Model Applying Boltzmann-Transport Equation Tervo, Jouko; Kolmonen, Pekka Mathematical Models and Methods in Applied Sciences, Vol. 12, Issue 01 https://doi.org/10.1142/S021820250200157X	journal	January 2002
Comparison of a finite-element multigroup discrete-ordinates code with Monte Carlo for radiotherapy calculations Gifford, Kent A.; Horton, John L.; Wareing, Todd A. Physics in Medicine and Biology, Vol. 51, Issue 9 https://doi.org/10.1088/0031-9155/51/9/010	journal	April 2006
Monte Carlo techniques in medical radiation physics Andreo, P. Physics in Medicine and Biology, Vol. 36, Issue 7 https://doi.org/10.1088/0031-9155/36/7/001	journal	July 1991
Numerical Methods for Conservation Laws LeVeque, Randall J. Lectures in Mathematics. ETH Zürich https://doi.org/10.1007/978-3-0348-8629-1	book	January 1992
A robust collision source method for rank adaptive dynamical low-rank approximation in radiation therapy Kusch, Jonas; Stammer, Pia ESAIM: Mathematical Modelling and Numerical Analysis, Vol. 57, Issue 2 https://doi.org/10.1051/m2an/2022090	journal	March 2023
Kinetic.jl: A portable finite volume toolbox for scientific and neural computing Xiao, Tianbai Journal of Open Source Software, Vol. 6, Issue 62 https://doi.org/10.21105/joss.03060	journal	June 2021
Behavior of linear reconstruction techniques on unstructured meshes Aftosmis, Michael; Gaitonde, Datta; Tavares, T. Sean AIAA Journal, Vol. 33, Issue 11 https://doi.org/10.2514/3.12945	journal	November 1995
Emerging role of MRI in radiation therapy Chandarana, Hersh; Wang, Hesheng; Tijssen, R. H. N. Journal of Magnetic Resonance Imaging, Vol. 48, Issue 6 https://doi.org/10.1002/jmri.26271	journal	September 2018
Development of the open-source dose calculation and optimization toolkit matRad Wieser, Hans-Peter; Cisternas, Eduardo; Wahl, Niklas Medical Physics, Vol. 44, Issue 6 https://doi.org/10.1002/mp.12251	journal	May 2017
The Cancer Imaging Archive (TCIA): Maintaining and Operating a Public Information Repository Clark, Kenneth; Vendt, Bruce; Smith, Kirk Journal of Digital Imaging, Vol. 26, Issue 6 https://doi.org/10.1007/s10278-013-9622-7	journal	July 2013
Ray Effect Mitigation Through Reference Frame Rotation Tencer, John Journal of Heat Transfer, Vol. 138, Issue 11 https://doi.org/10.1115/1.4033699	journal	June 2016
The validity of the density scaling method in primary electron transport for photon and electron beams Woo, M. K.; Cunningham, J. R. Medical Physics, Vol. 17, Issue 2 https://doi.org/10.1118/1.596497	journal	March 1990
State of the art on dose prescription, reporting and recording in Intensity-Modulated Radiation Therapy (ICRU report No. 83) Grégoire, V.; Mackie, T. R. Cancer/Radiothérapie, Vol. 15, Issue 6-7 https://doi.org/10.1016/j.canrad.2011.04.003	journal	October 2011
Electron dose calculations using the Method of Moments Larsen, Edward W.; Miften, Moyed M.; Fraass, Benedick A. Medical Physics, Vol. 24, Issue 1 https://doi.org/10.1118/1.597920	journal	January 1997
Optimization and large scale computation of an entropy-based moment closure Kristopher Garrett, C.; Hauck, Cory; Hill, Judith Journal of Computational Physics, Vol. 302 https://doi.org/10.1016/j.jcp.2015.09.008	journal	December 2015
TOPAS: An innovative proton Monte Carlo platform for research and clinical applications: TOPAS: An innovative proton Monte Carlo platform Perl, J.; Shin, J.; Schümann, J. Medical Physics, Vol. 39, Issue 11 https://doi.org/10.1118/1.4758060	journal	October 2012
A Comparison of Moment Closures for Linear Kinetic Transport Equations: The Line Source Benchmark Garrett, C. Kristopher; Hauck, Cory D. Transport Theory and Statistical Physics, Vol. 42, Issue 6-7 https://doi.org/10.1080/00411450.2014.910226	journal	September 2013
Ray effect mitigation for the discrete ordinates method through quadrature rotation Camminady, Thomas; Frank, Martin; Küpper, Kerstin Journal of Computational Physics, Vol. 382 https://doi.org/10.1016/j.jcp.2019.01.016	journal	April 2019
On the accuracy of limiters and convergence to steady state solutions Venkatakrishnan, V. 31st Aerospace Sciences Meeting https://doi.org/10.2514/6.1993-880	conference	February 2013
Moment closure hierarchies for kinetic theories Levermore, C. David Journal of Statistical Physics, Vol. 83, Issue 5-6 https://doi.org/10.1007/BF02179552	journal	June 1996
Superlinear speedup of an efficient sequential algorithm is not possible Faber, V.; Lubeck, Olaf M.; White, Andrew B. Parallel Computing, Vol. 3, Issue 3 https://doi.org/10.1016/0167-8191(86)90024-4	journal	July 1986
StaRMAP---A Second Order Staggered Grid Method for Spherical Harmonics Moment Equations of Radiative Transfer Seibold, Benjamin; Frank, Martin ACM Transactions on Mathematical Software, Vol. 41, Issue 1 https://doi.org/10.1145/2590808	journal	October 2014
Generalized Fokker–Planck Theory for Electron and Photon Transport in Biological Tissues: Application to Radiotherapy Olbrant, Edgar; Frank, Martin Computational and Mathematical Methods in Medicine, Vol. 11, Issue 4 https://doi.org/10.1080/1748670X.2010.491828	journal	January 2010
Remedies for Ray Effects Lathrop, K. D. Nuclear Science and Engineering, Vol. 45, Issue 3 https://doi.org/10.13182/NSE45-03-255	journal	September 1971
Benchmarks for Infinite Medium, Time Dependent Transport Problems with Isotropic Scattering Bennett, William; McClarren, Ryan G. Journal of Computational and Theoretical Transport, Vol. 51, Issue 4 https://doi.org/10.1080/23324309.2022.2103151	journal	June 2022
A finite-element model of electron transport in radiation therapy and a related inverse problem Tervo, J.; Kolmonen, P.; Vauhkonen, M. Inverse Problems, Vol. 15, Issue 5 https://doi.org/10.1088/0266-5611/15/5/316	journal	October 1999
Ray Effect Mitigation for the Discrete Ordinates Method Using Artificial Scattering Frank, Martin; Kusch, Jonas; Camminady, Thomas Nuclear Science and Engineering, Vol. 194, Issue 11 https://doi.org/10.1080/00295639.2020.1730665	journal	March 2020
Dynamical Low‐Rank Approximation Koch, Othmar; Lubich, Christian SIAM Journal on Matrix Analysis and Applications, Vol. 29, Issue 2 https://doi.org/10.1137/050639703	journal	January 2007
Two-dimensional time dependent Riemann solvers for neutron transport Brunner, Thomas A.; Holloway, James Paul Journal of Computational Physics, Vol. 210, Issue 1 https://doi.org/10.1016/j.jcp.2005.04.011	journal	November 2005
Feasibility of a Multigroup Deterministic Solution Method for Three-Dimensional Radiotherapy Dose Calculations Vassiliev, Oleg N.; Wareing, Todd A.; Davis, Ian M. International Journal of Radiation OncologyBiologyPhysics, Vol. 72, Issue 1 https://doi.org/10.1016/j.ijrobp.2008.04.057	journal	September 2008
Formal Metrics for Large-Scale Parallel Performance Moreland, Kenneth; Oldfield, Ron Lecture Notes in Computer Science https://doi.org/10.1007/978-3-319-20119-1_34	book	January 2015
Complexity of Monte Carlo and deterministic dose-calculation methods Börgers, Christoph Physics in Medicine and Biology, Vol. 43, Issue 3 https://doi.org/10.1088/0031-9155/43/3/004	journal	March 1998
Entropy-based moment closures for kinetic equations Levermore, C. David Transport Theory and Statistical Physics, Vol. 26, Issue 4-5 https://doi.org/10.1080/00411459708017931	journal	January 1997
GPU-based fast Monte Carlo dose calculation for proton therapy Jia, Xun; Schümann, Jan; Paganetti, Harald Physics in Medicine and Biology, Vol. 57, Issue 23 https://doi.org/10.1088/0031-9155/57/23/7783	journal	November 2012
A Regularized Entropy-Based Moment Method for Kinetic Equations Alldredge, Graham W.; Frank, Martin; Hauck, Cory D. SIAM Journal on Applied Mathematics, Vol. 79, Issue 5 https://doi.org/10.1137/18M1181201	journal	January 2019
On the Propagation of Rays in Discrete Ordinates Mathews, Kirk A. Nuclear Science and Engineering, Vol. 132, Issue 2 https://doi.org/10.13182/NSE99-A2057	journal	June 1999
Analysis of Ray-Effect Mitigation Techniques Morel, J. E.; Wareing, T. A.; Lowrie, R. B. Nuclear Science and Engineering, Vol. 144, Issue 1 https://doi.org/10.13182/NSE01-48	journal	May 2003
Electron beam dose calculations Hogstrom, K. R.; Mills, M. D.; Almond, P. R. Physics in Medicine and Biology, Vol. 26, Issue 3 https://doi.org/10.1088/0031-9155/26/3/008	journal	May 1981
A Monte Carlo dose calculation algorithm for proton therapy Fippel, Matthias; Soukup, Martin Medical Physics, Vol. 31, Issue 8 https://doi.org/10.1118/1.1769631	journal	July 2004
Validation of a new grid-based Boltzmann equation solver for dose calculation in radiotherapy with photon beams Vassiliev, Oleg N.; Wareing, Todd A.; McGhee, John Physics in Medicine and Biology, Vol. 55, Issue 3 https://doi.org/10.1088/0031-9155/55/3/002	journal	January 2010
Multiple Scattering with Energy Loss Eyges, Leonard Physical Review, Vol. 74, Issue 10 https://doi.org/10.1103/PhysRev.74.1534	journal	November 1948
Deterministic model for dose calculation in photon radiotherapy Hensel, Hartmut; Iza-Teran, Rodrigo; Siedow, Norbert Physics in Medicine and Biology, Vol. 51, Issue 3 https://doi.org/10.1088/0031-9155/51/3/013	journal	January 2006
Uncertainty quantification and numerical methods in charged particle radiation therapy Stammer, Pia Karlsruher Institut für Technologie (KIT) https://doi.org/10.5445/IR/1000158316	text	January 2023
Maximum-principle-satisfying second-order Intrusive Polynomial Moment scheme Kusch, Jonas; Alldredge, Graham W.; Frank, Martin The SMAI journal of computational mathematics, Vol. 5 https://doi.org/10.5802/smai-jcm.42	journal	March 2019
Angular Quadratures for Improved Transport Computations Abu-Shumays, I. K. Transport Theory and Statistical Physics, Vol. 30, Issue 2-3 https://doi.org/10.1081/TT-100105367	journal	June 2001
Optimal control model for radiation therapy inverse planning applying the Boltzmann transport equation Tervo, J.; Vauhkonen, M.; Boman, E. Linear Algebra and its Applications, Vol. 428, Issue 5-6 https://doi.org/10.1016/j.laa.2007.03.003	journal	March 2008
MRI-guided Radiation Therapy: An Emerging Paradigm in Adaptive Radiation Oncology Otazo, Ricardo; Lambin, Philippe; Pignol, Jean-Philippe Radiology, Vol. 298, Issue 2 https://doi.org/10.1148/radiol.2020202747	journal	February 2021
A deterministic partial differential equation model for dose calculation in electron radiotherapy Duclous, R.; Dubroca, B.; Frank, M. Physics in Medicine and Biology, Vol. 55, Issue 13 https://doi.org/10.1088/0031-9155/55/13/018	journal	June 2010
Amdahl’s Law Karmani, Rajesh K.; Agha, Gul; Squillante, Mark S. Encyclopedia of Parallel Computing https://doi.org/10.1007/978-0-387-09766-4_77	book	January 2011
Ray Effects in Discrete Ordinates Equations Lathrop, K. D. Nuclear Science and Engineering, Vol. 32, Issue 3 https://doi.org/10.13182/NSE68-4	journal	June 1968
A review of substitute CT generation for MRI-only radiation therapy Edmund, Jens M.; Nyholm, Tufve Radiation Oncology, Vol. 12, Issue 1 https://doi.org/10.1186/s13014-016-0747-y	journal	January 2017

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97 MATHEMATICS AND COMPUTING
kinetic theory
radiation transport
radiation therapy
finite volume methods
machine learning

Title: KiT-RT: An Extendable Framework for Radiative Transfer and Therapy

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References (59)

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