References
- Ahnert K, Mulansky M, Simos TE, Psihoyios G, Tsitouras C, Anastassi Z. Odeint – solving ordinary differential equations in C++. In AIP Conference Proceedings.
AIP ;2011 . DOI: 10.1063/1.3637934 - Ahnert M. ODEINT state types, algebras and operations; 2015. URL
https://www.boost.org/doc/libs/1_66_0/libs/numeric/odeint/doc/html/index.html . [Online; accessed 20-April-2021]. - Alam S, Najma B, Singh A, Laprade J, Gajeshwar G, Yevick HG, Baskaran A, Foster PJ, Duclos G. Active Fréedericksz transition in active nematic droplets. Phys. Rev. X. 2024;14:
041002 . URLhttps://link.aps.org/doi/10.1103/PhysRevX.14.041002 - Crespo A, Domínguez J, Rogers B, Gómez-Gesteira M, Longshaw S, Canelas R, Vacondio R, Barreiro A, García-Feal O. Dualsphysics: Open-source parallel cfd solver based on smoothed particle hydrodynamics (sph). Computer Physics Communications. 2015;187:204–216. URL
https://www.sciencedirect.com/science/article/pii/S0010465514003397 - Gardner DJ, Reynolds DR, Woodward CS, Balos CJ. Enabling new flexibility in the SUNDIALS suite of nonlinear and differential/algebraic equation solvers. ACM Transactions on Mathematical Software; 2022. DOI: 10.1145/3539801
- Harris CR, Millman KJ, van der Walt SJ, Gommers R, Virtanen P, Cournapeau D, Wieser E, Taylor J, Berg S, Smith NJ, Kern R, Picus M, Hoyer S, van Kerkwijk MH, Brett M, Haldane A, del Río JF, Wiebe M, Peterson P, Gérard-Marchant P, Sheppard K, Reddy T, Weckesser W, Abbasi H, Gohlke C, Oliphant TE. Array programming with NumPy. Nature. 2020;585(7825):357–362. DOI: 10.1038/s41586-020-2649-2
- Incardona P, Gupta A, Yaskovets S, Sbalzarini IF. A portable C++ library for memory and compute abstraction on multi-core CPUs and GPUs. Concurrency Computat. Pract. Exper. 2023;
e7870 . DOI: 10.1002/cpe.7870 - Incardona P, Leo A, Zaluzhnyi Y, Ramaswamy R, Sbalzarini IF. OpenFPM: A scalable open framework for particle and particle-mesh codes on parallel computers. Computer Physics Communications. 2019;241:155–177. URL
https://www.sciencedirect.com/science/article/pii/S0010465519300852 - Karol S, Nett T, Castrillon J, Sbalzarini IF. A domain-specific language and editor for parallel particle methods. ACM Trans. Math. Softw. 2018;44(3):34:1–34:32. DOI: 10.1145/3175659
- Khouzami N, Michel F, Incardona P, Castrillon J, Sbalzarini IF. Model-based autotuning of discretization methods in numerical simulations of partial differential equations. Journal of Computational Science. 2022;57:
101489 . URLhttps://www.sciencedirect.com/science/article/pii/S1877750321001563 - Khouzami N, Schütze L, Incardona P, Kraatz L, Subic T, Castrillon J, Sbalzarini IF.
The OpenPME problem solving environment for numerical simulations . In Paszynski M, Kranzlmüller D, Krzhizhanovskaya VV, Dongarra JJ, Sloot PMA, editors. Computational Science – ICCS 2021. Lecture Notes in Computer Science, Springer International Publishing, Cham. 2021:614–627. DOI: 10.1007/978-3-030-77961-0_49 - MATLAB. Version 7.10.0 (R2010a). The MathWorks Inc., Natick, Massachusetts; 2010.
- Monaghan JJ. Smoothed particle hydrodynamics. Annu. Rev. Astron. Astrophys. 1992;30:543–574. DOI: 10.1146/annurev.aa.30.090192.002551
- Press WH, Teukolsky SA. Adaptive stepsize Runge-Kutta integration. Computers in Physics. 1992;6(2):188–191. DOI: 10.1063/1.4823060
- Schrader B, Reboux S, Sbalzarini IF. Discretization correction of general integral pse operators for particle methods. Journal of Computational Physics. 2010;229(11):4159–4182. DOI: 10.1016/j.jcp.2010.02.004
- Singh A, Incardona P, Sbalzarini IF. A C++ expression system for partial differential equations enables generic simulations of biological hydrodynamics. Eur. Phys. J. E. 2021;44(9):
117 . DOI: 10.1140/epje/s10189-021-00121-x - Singh A, Suhrcke PH, Incardona P, Sbalzarini IF. A numerical solver for active hydrodynamics in three dimensions and its application to active turbulence. Physics of Fluids. 2023;35(10). DOI: 10.1063/5.0169546
- Singh A, Vagne Q, Jülicher F, Sbalzarini IF. Spontaneous flow instabilities of active polar fluids in three dimensions. Phys. Rev. Res. 2023;5:
L022061 . URLhttps://link.aps.org/doi/10.1103/PhysRevResearch.5.L022061