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Everything you wanted to know about Markov State Models but were afraid to ask

, , and . Methods, 52 (1): 99--105 (2010)

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Quantifying Configuration-Sampling Error in Langevin Simulations of Complex Molecular Systems., , , , , and . Entropy, 20 (5): 318 (2018)OpenMM 7: Rapid development of high performance algorithms for molecular dynamics., , , , , , , , , and 3 other author(s). PLoS Comput. Biol., (2017)Ensembler: Enabling High-Throughput Molecular Simulations at the Superfamily Scale., , , , and . PLoS Comput. Biol., (2016)Copernicus: a new paradigm for parallel adaptive molecular dynamics., , , , , , , , , and . SC, page 60:1-60:10. ACM, (2011)Everything you wanted to know about Markov State Models but were afraid to ask, , and . Methods, 52 (1): 99--105 (2010)MSMBuilder: Statistical Models for Biomolecular Dynamics, , , , , , , , and . Biophysical Journal, 112 (1): 10 - 15 (2017)MSMBuilder2: Modeling Conformational Dynamics on the Picosecond to Millisecond Scale, , , , , and . Journal of Chemical Theory and Computation, 7 (10): 3412-3419 (2011)PMID: 22125474.MDTraj: A Modern Open Library for the Analysis of Molecular Dynamics Trajectories, , , , , , , , , and . Biophysical Journal, 109 (8): 1528 - 1532 (2015)Progress and challenges in the automated construction of Markov state models for full protein systems, , , and . The Journal of Chemical Physics, (2009)