Login / Signup

Transition path sampling of rare events by shooting from the top.

Hendrik JungKei-Ichi OkazakiGerhard Hummer
Published in: The Journal of chemical physics (2018)
Transition path sampling is a powerful tool in the study of rare events. Shooting trial trajectories from configurations along existing transition paths proved particularly efficient in the sampling of reactive trajectories. However, most shooting attempts tend not to result in transition paths, in particular in cases where the transition dynamics has diffusive character. To overcome the resulting efficiency problem, we developed an algorithm for "shooting from the top." We first define a shooting range through which all paths have to pass and then shoot off trial trajectories only from within this range. For a well chosen shooting range, nearly every shot is successful, resulting in an accepted transition path. To deal with multiple mechanisms, weighted shooting ranges can be used. To cope with the problem of unsuitably placed shooting ranges, we developed an algorithm that iteratively improves the location of the shooting range. The transition path sampling procedure is illustrated for models of diffusive and Langevin dynamics. The method should be particularly useful in cases where the transition paths are long so that only relatively few shots are possible, yet reasonable order parameters are known.
Keyphrases
  • depressive symptoms
  • machine learning
  • clinical trial
  • study protocol
  • deep learning
  • magnetic resonance
  • computed tomography
  • minimally invasive
  • open label