Papers#

If you have used CUQIpy in your research, we kindly ask you to cite the following papers:

  • Riis NA, Alghamdi AM, Uribe F, Christensen SL, Afkham BM, Hansen PC, Jørgensen JS. CUQIpy: I. Computational uncertainty quantification for inverse problems in Python. Inverse Problems. 2024 Apr 1;40(4):045009. DOI; arXiv

  • Alghamdi AM, Riis NA, Afkham BM, Uribe F, Christensen SL, Christian Hansen P, Jørgensen JS. CUQIpy: II. Computational uncertainty quantification for PDE-based inverse problems in Python. Inverse Problems. 2024 Apr 1;40(4):045010. DOI; arXiv

If you have used implicit priors of CUQIpy in your research, we kindly ask you to also cite the following paper:

  • Everink JM, Zhang C, Alghamdi A, Laumont R, Riis NA, Jørgensen JS. A Computational Framework and Implementation of Implicit Priors in Bayesian Inverse Problems. arXiv preprint arXiv:2509.11781. 2025 Sep 15. arXiv

Here we also keep a collection of papers that use CUQIpy. If your paper should be included, please open an issue or pull request on GitHub.

  • Rud M, Dong Y, Everink JM, Järleblad H, Jørgensen JS, Kernel Q, Madsen B, Podestà M, Valentini A, Salewski M, TCV Team. Bayesian velocity-space tomography with collision-and charge-exchange-physics prior from fast-ion D-alpha measurements at TCV with uncertainty quantification. Plasma Physics and Controlled Fusion. 2026 Jan 1;68(1):015035. DOI

  • Alghamdi A, Mathiesen BK, Miyakoshi L, Nedergaard M, Jørgensen JS, Bork PA. Cochlear Aqueduct Advection and Diffusion Inferred from Computed Tomography Imaging with a Bayesian Approach. Journal of the Association for Research in Otolaryngology. 2026 Apr 13:1-3. DOI

  • Zhang C, Everink JM, Jørgensen JS. Efficient monotonic Gaussian processes via Randomize-then-Optimize. Journal of Computational Physics. 2026 Feb 19:114787. DOI; arXiv

  • Seelinger L, Reinarz A, Lykkegaard MB, Akers R, Alghamdi AM, Aristoff D, Bangerth W, Bénézech J, Diez M, Frey K, Jakeman JD. Democratizing uncertainty quantification. Journal of Computational Physics. 2025 Jan 15;521:113542. DOI; arXiv

  • Christensen SL, Riis NA, Pereyra M, Jørgensen JS. A Bayesian approach for CT reconstruction with defect detection for subsea pipelines. Inverse Problems. 2024 Feb 1;40(2):025003. DOI