Robust Perron cluster analysis in conformation dynamics

Peter Deuflhard, Marcus Weber

Type: Article

Publication Date: 2004-12-24

Citations: 493

DOI: https://doi.org/10.1016/j.laa.2004.10.026

View Publication

Locations

Linear Algebra and its Applications - View

Similar Works

Action	Title	Year	Authors
+	Statistical Error Estimation and Grid-free Hierarchical Refinement in Conformation Dynamics	2009	Susanna Röblitz
+	Errata on "Robust Perron Cluster Analysis in Conformation Dynamics"	2006	Susanna Kube Peter Deuflhard
+	Spectral clustering of Markov chain transition matrices with complex eigenvalues	2024	Anna-Simone Frank Alexander Sikorski Susanna Röblitz
+	Spectral clustering of Markov chain transition matrices with complex eigenvalues	2022	Anna-Simone Frank Alexander Sikorski Susanna Röblitz
+	Observation uncertainty in reversible Markov chains	2010	Philipp Metzner Marcus Weber Christof Schütte
+	G-PCCA: Spectral Clustering for Non-reversible Markov Chains	2015	Marcus Weber Konstantin Fackeldey
+ PDF Chat	Finding metastabilities in reversible Markov chains based on incomplete sampling	2017	Konstantin Fackeldey Amir Niknejad Marcus Weber
+ PDF Chat	Variational Koopman models: Slow collective variables and molecular kinetics from short off-equilibrium simulations	2017	Hao Wu Feliks Nüske Fabian Paul Stefan Klus Péter Koltai Frank Noé
+	Variational approximation of molecular kinetics from short off-equilibrium simulations	2016	Hao Wu Feliks Nüske Fabian Paul Stefan Klus Péter Koltai Frank Noé
+	A Square Root Approximation of Transition Rates for a Markov State Model	2013	Han Cheng Lie Konstantin Fackeldey Marcus Weber
+	Efficient Approximation of Molecular Kinetics using Random Fourier Features	2023	Feliks Nüske Stefan Klus
+ PDF Chat	Efficient approximation of molecular kinetics using random Fourier features	2023	Feliks Nüske Stefan Klus
+ PDF Chat	Applications of Magnus expansions and pseudospectra to Markov processes	2018	Arieh Iserles Shev MacNamara
+	Numerical estimation of the second largest eigenvalue of a reversible Markov transition matrix	2008	Kranthi Kumar Gade
+ PDF Chat	Learning Koopman eigenfunctions of stochastic diffusions with optimal importance sampling and ISOKANN	2024	Alexander Sikorski Enric Ribera Borrell Marcus Weber
+	Integrated VAC: A robust strategy for identifying eigenfunctions of dynamical operators	2020	Chatipat Lorpaiboon Erik H. Thiede Robert J. Webber Jonathan Weare Aaron R. Dinner
+	Integrated VAC: A robust strategy for identifying eigenfunctions of dynamical operators	2020	Chatipat Lorpaiboon Erik H. Thiede Robert J. Webber Jonathan Weare Aaron R. Dinner
+	Integrated Variational Approach to Conformational Dynamics: A Robust Strategy for Identifying Eigenfunctions of Dynamical Operators	2020	Chatipat Lorpaiboon Erik H. Thiede Robert J. Webber Jonathan Weare Aaron R. Dinner
+ PDF Chat	Stochastic resetting in the Kramers problem: A Monte Carlo approach	2021	Julia Cantisán Jesús M. Seoane Miguel A. F. Sanjuán
+	Metastability of Markovian systems: A transfer operator based approach in application to molecular dynamics	2001	Wilhelm Huisinga

Works That Cite This (148)

Action	Title	Year	Authors
+	Bayesian inference of kinetic schemes for ion channels by Kalman filtering	2020	Jan L. Münch Fabian Paul Ralf Schmauder Klaus Benndorf
+	Tensor-SqRA: Modeling the Transition Rates of Interacting Molecular Systems in terms of Potential Energies	2023	Alexander Sikorski Amir Niknejad Marcus Weber Luca Donati
+ PDF Chat	Tensor-SqRA: Modeling the transition rates of interacting molecular systems in terms of potential energies	2024	Alexander Sikorski Amir Niknejad Marcus Weber Luca Donati
+	Modularity of directed networks: Cycle decomposition approach	2015	Nataša Djurdjevac Conrad Ralf Banisch Christof Schütte
+	Estimating exit rates in rare event dynamical systems via extrapolation	2015	Informationstechnik Berlin Marcus Weber Jannes Quer
+	A Bayesian nonparametric model for spectral estimation of metastable systems	2014	Hao Wu
+	On the Approximation Quality of Markov State Models	2010	Marco Sarich Frank Noé Christof Schütte
+	On Using Spectral Graph Theory to Infer the Structure of Multiscale Markov Processes	2015	Chin Pang Ho Panos Parpas
+ PDF Chat	Clusters in Markov chains via singular vectors of Laplacian matrices	2022	Sam Cole Steve Kirkland
+	Errata on "Robust Perron Cluster Analysis in Conformation Dynamics"	2006	Susanna Kube Peter Deuflhard

Works Cited by This (9)

Action	Title	Year	Authors
+	Metastability and Dominant Eigenvalues of Transfer Operators	2006	Wilhelm Huisinga Bernd Schmidt
+	Numerical analysis in modern scientific computing: An introduction	2004	Peter Deuflhard Andreas Hohmann
+ PDF Chat	Perturbation Theory for Linear Operators	1995	Tosio Kato
+ PDF Chat	Phase transitions and metastability in Markovian and molecular systems	2004	Wilhelm Huisinga Sean Meyn Christof Schütte
+	Stochastic Complementation, Uncoupling Markov Chains, and the Theory of Nearly Reducible Systems	1989	Carl D. Meyer
+	Statistically optimal almost-invariant sets	2005	Gary Froyland
+	A Simplex Method for Function Minimization	1965	J. A. Nelder R. Mead
+	Metastability of Markovian systems: A transfer operator based approach in application to molecular dynamics	2001	Wilhelm Huisinga
+	Improved Perron Cluster Analysis	2003	Marcus Weber