CATBOSS: Cluster Analysis of Trajectories Based on Segment Splitting
Jovan Damjanovic, James M. Murphy, Yu‐Shan Lin
Abstract
learned by change detection. Applying the method to a synthetic toy model as well as four real-life data sets-trajectories of MD simulations of alanine dipeptide and valine dipeptide as well as two fast-folding proteins-we find CATBOSS to be robust and highly performant, yielding natural-looking cluster boundaries and greatly improving clustering resolution. As the classification of points into segments emphasizes density gaps in the data by grouping them close to the state means, CATBOSS applied to the valine dipeptide system is even able to account for a degree of freedom deliberately omitted from the input data set. We also demonstrate the potential utility of CATBOSS in distinguishing metastable states from transition segments as well as promising application to cases where there is little or no advance knowledge of intrinsic coordinates, making for a highly versatile analysis tool.