Donati, Luca; Weber, Marcus; Keller, Bettina G. A review of Girsanov reweighting and of square root approximation for building molecular Markov state models. (English) Zbl 1509.82097 J. Math. Phys. 63, No. 12, Article ID 123306, 21 p. (2022). MSC: 82C31 60J70 60J22 81V55 PDFBibTeX XMLCite \textit{L. Donati} et al., J. Math. Phys. 63, No. 12, Article ID 123306, 21 p. (2022; Zbl 1509.82097) Full Text: DOI arXiv
Sechi, Renata; Sikorski, Alexander; Weber, Marcus Estimation of the Koopman generator by Newton’s extrapolation. (English) Zbl 1470.60216 Multiscale Model. Simul. 19, No. 2, 758-774 (2021). MSC: 60J28 37M10 PDFBibTeX XMLCite \textit{R. Sechi} et al., Multiscale Model. Simul. 19, No. 2, 758--774 (2021; Zbl 1470.60216) Full Text: DOI
Röhl, Susanne; Weber, Marcus; Fackeldey, Konstantin Computing the minimal rebinding effect for nonreversible processes. (English) Zbl 1465.60067 Multiscale Model. Simul. 19, No. 1, 460-477 (2021). MSC: 60J10 60J22 15B51 82C21 PDFBibTeX XMLCite \textit{S. Röhl} et al., Multiscale Model. Simul. 19, No. 1, 460--477 (2021; Zbl 1465.60067) Full Text: DOI arXiv
Fackeldey, K.; Sikorski, A.; Weber, M. Spectral clustering for non-reversible Markov chains. (English) Zbl 1413.62082 Comput. Appl. Math. 37, No. 5, 6376-6391 (2018). MSC: 62H30 60J10 62M15 PDFBibTeX XMLCite \textit{K. Fackeldey} et al., Comput. Appl. Math. 37, No. 5, 6376--6391 (2018; Zbl 1413.62082) Full Text: DOI
Witzig, Jakob; Beckenbach, Isabel; Eifler, Leon; Fackeldey, Konstantin; Gleixner, Ambros; Grever, Andreas; Weber, Marcus Mixed-integer programming for cycle detection in nonreversible Markov processes. (English) Zbl 1391.60170 Multiscale Model. Simul. 16, No. 1, 248-265 (2018). MSC: 60J05 60J22 82B30 90C11 90C27 PDFBibTeX XMLCite \textit{J. Witzig} et al., Multiscale Model. Simul. 16, No. 1, 248--265 (2018; Zbl 1391.60170) Full Text: DOI arXiv
Quer, J.; Donati, L.; Keller, B. G.; Weber, M. An automatic adaptive importance sampling algorithm for molecular dynamics in reaction coordinates. (English) Zbl 1390.60190 SIAM J. Sci. Comput. 40, No. 2, A653-A670 (2018). MSC: 60G99 68U20 65C35 65C60 PDFBibTeX XMLCite \textit{J. Quer} et al., SIAM J. Sci. Comput. 40, No. 2, A653--A670 (2018; Zbl 1390.60190) Full Text: DOI
Hartmann, Carsten; Schütte, Christof; Weber, Marcus; Zhang, Wei Importance sampling in path space for diffusion processes with slow-fast variables. (English) Zbl 1386.60032 Probab. Theory Relat. Fields 170, No. 1-2, 177-228 (2018). Reviewer: Uwe Franz (Besançon) MSC: 60C05 60J60 60F15 PDFBibTeX XMLCite \textit{C. Hartmann} et al., Probab. Theory Relat. Fields 170, No. 1--2, 177--228 (2018; Zbl 1386.60032) Full Text: DOI arXiv
Fackeldey, Konstantin; Niknejad, Amir; Weber, Marcus Finding metastabilities in reversible Markov chains based on incomplete sampling. (English) Zbl 1392.60063 Spec. Matrices 5, 73-81 (2017). MSC: 60J22 62M05 PDFBibTeX XMLCite \textit{K. Fackeldey} et al., Spec. Matrices 5, 73--81 (2017; Zbl 1392.60063) Full Text: DOI
Weber, Marcus; Ernst, Natalia A fuzzy-set theoretical framework for computing exit rates of rare events in potential-driven diffusion processes. arXiv:1708.00679 Preprint, arXiv:1708.00679 [math.DS] (2017). MSC: 35P99 60J22 BibTeX Cite \textit{M. Weber} and \textit{N. Ernst}, ``A fuzzy-set theoretical framework for computing exit rates of rare events in potential-driven diffusion processes'', Preprint, arXiv:1708.00679 [math.DS] (2017) Full Text: arXiv OA License
Djurdjevac Conrad, Nataša; Weber, Marcus; Schütte, Christof Finding dominant structures of nonreversible Markov processes. (English) Zbl 1352.65025 Multiscale Model. Simul. 14, No. 4, 1319-1340 (2016). MSC: 65C40 60J20 82C26 PDFBibTeX XMLCite \textit{N. Djurdjevac Conrad} et al., Multiscale Model. Simul. 14, No. 4, 1319--1340 (2016; Zbl 1352.65025) Full Text: DOI
Nielsen, Adam; Weber, Marcus Computing the nearest reversible Markov chain. (English) Zbl 1363.65010 Numer. Linear Algebra Appl. 22, No. 3, 483-499 (2015). MSC: 65C40 65K05 90C25 60J22 PDFBibTeX XMLCite \textit{A. Nielsen} and \textit{M. Weber}, Numer. Linear Algebra Appl. 22, No. 3, 483--499 (2015; Zbl 1363.65010) Full Text: DOI
Lie, Han Cheng; Fackeldey, Konstantin; Weber, Marcus A square root approximation of transition rates for a Markov state model. (English) Zbl 1274.60232 SIAM J. Matrix Anal. Appl. 34, No. 2, 738-756 (2013). MSC: 60J10 60J22 82B80 PDFBibTeX XMLCite \textit{H. C. Lie} et al., SIAM J. Matrix Anal. Appl. 34, No. 2, 738--756 (2013; Zbl 1274.60232) Full Text: DOI Link
Röblitz, Susanna; Weber, Marcus Fuzzy spectral clustering by PCCA+: application to Markov state models and data classification. (English) Zbl 1273.62145 Adv. Data Anal. Classif., ADAC 7, No. 2, 147-179 (2013). MSC: 62H30 62H86 60J20 60J10 65K05 PDFBibTeX XMLCite \textit{S. Röblitz} and \textit{M. Weber}, Adv. Data Anal. Classif., ADAC 7, No. 2, 147--179 (2013; Zbl 1273.62145) Full Text: DOI
Fackeldey, Konstantin; Bujotzek, Alexander; Weber, Marcus A meshless discretization method for Markov state models applied to explicit water peptide folding simulations. (English) Zbl 1269.82072 Griebel, Michael (ed.) et al., Meshfree methods for partial differential equations VI. Selected papers of the sixth international workshop, Bonn, Germany, October 4–6, 2011. Berlin: Springer (ISBN 978-3-642-32978-4/hbk; 978-3-642-32979-1/ebook). Lecture Notes in Computational Science and Engineering 89, 141-154 (2013). MSC: 82D60 82-08 60J75 PDFBibTeX XMLCite \textit{K. Fackeldey} et al., Lect. Notes Comput. Sci. Eng. 89, 141--154 (2013; Zbl 1269.82072) Full Text: DOI
Deuflhard, Peter; Weber, Marcus Robust Perron cluster analysis in conformation dynamics. (English) Zbl 1070.15019 Linear Algebra Appl. 398, 161-184 (2005). Reviewer: Yueh-er Kuo (Knoxville) MSC: 15B51 62H30 15A18 65F15 60J10 PDFBibTeX XMLCite \textit{P. Deuflhard} and \textit{M. Weber}, Linear Algebra Appl. 398, 161--184 (2005; Zbl 1070.15019) Full Text: DOI