Optimized Markov state models for metastable systems.

@article{Guarnera2016OptimizedMS,
  title={Optimized Markov state models for metastable systems.},
  author={Enrico Guarnera and Eric Vanden-Eijnden},
  journal={The Journal of chemical physics},
  year={2016},
  volume={145 2},
  pages={
          024102
        }
}
A method is proposed to identify target states that optimize a metastability index amongst a set of trial states and use these target states as milestones (or core sets) to build Markov State Models (MSMs). If the optimized metastability index is small, this automatically guarantees the accuracy of the MSM, in the sense that the transitions between the target milestones is indeed approximately Markovian. The method is simple to implement and use, it does not require that the dynamics on the… 
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