Simulated tempering (ST) is a generalized-ensemble algorithm that employs trajectories exploring a range of temperatures to effectively sample rugged energy landscapes. When implemented using the molecular dynamics method, ST can require the use of short time steps for ensuring the stability of trajectories at high temperatures. To address this shortcoming, a mass-scaling ST (MSST) method is pr...

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An N -component continuous-time dynamic system is considered whose components evolve autonomously all the time except for in discrete asynchronous instances of pairwise interactions. Examples include chaotically colliding billiard balls and combat models. A new efficient serial event-driven algorithm is described for simulating such systems. Rather than maintaining and updating the global state...

Since the discovery that the native structure of a globular protein can fold spontaneously (Anfinsen et al., 1961), numerous experimental and theoretical efforts have been made to elucidate folding pathways, intermediates, transition states, etc. (for recent reviews, see Bryngelson et al., 1995; Fersht, 1995, 1997; Karplus and Šali, 1995; Ptitsyn, 1995; Miranker and Dobson, 1996; Shakhnovich, 1...

For a large class of processes with an absorbing state, statistical properties of the surviving sample attain time-independent values in the quasistationary (QS) regime. We propose a practical simulation method for studying quasistationary properties, based on the equation of motion governing the QS distribution. In applications to the contact process, the method is shown to reproduce exact res...

in this paper the telemac-3d model has been hired to simulate and study the high waves’ interaction with coastal structures. therefore a special arrangement of telemac-3d has been prepared in this study to simulate wave generation, coastal processes, wave set-up and overtopping over coastal structures. experimental data has been used to verify this arrangement of the model. thereafter, the mode...

We suggest electronic circuits with memristors (resistors with memory) that operate as memcapacitors (capacitors with memory) and meminductors (inductors with memory). Using a memristor emulator, the suggested circuits have been built and their operation has been demonstrated, showing a useful and interesting connection between the three memory elements.