This conference paper presents visualization strategies for lattice-based protein folding simulations, turning complex folding trajectories and energy-landscape transitions into interpretable interactive representations.
This paper develops an efficient flooding-style algorithm for exploring the low-energy part of discrete polymer landscapes, making barrier-tree analysis feasible without exhaustive enumeration.
This paper develops the barrier-tree formalism for degenerate landscapes and helped establish a general language for analyzing basins, saddle points, and transition barriers in complex discrete systems.