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Computer modeling of multicellular systems has been a valuable tool for interpreting and guiding in vitro experiments relevant to embryonic morphogenesis, tumor growth, angiogenesis and, lately, structure formation following the printing of…
Efficient simulation of complex plasma dynamics is crucial for advancing fusion energy research. Particle-in-Cell (PIC) Monte Carlo (MC) simulations provide insights into plasma behavior, including turbulence and confinement, which are…
Presented here is an algorithm for a type-II quantum computer which simulates the Ising model in one and two dimensions. It is equivalent to the Metropolis Monte-Carlo method and takes advantage of quantum superposition for random number…
We proposed the method that translates the 2-D CSP for minimizing the number of cuts to the Ising model. After that, we conducted computer experiments of the proposed model using the benchmark problem. From the above, the following results…
An ever-increasing demand for high-performance silicon sensors requires complex sensor designs that are challenging to simulate and model. The combination of electrostatic finite element simulations with a transient Monte Carlo approach…
Molecular dynamics facilitates the simulation of a complex system to be analyzed at molecular and atomic levels. Simulations can last a long period of time, even months. Due to this cause the graphics processing units (GPUs) and multi-core…
Spin-glass (SG) states of the 3-dimensional Ising Edwards-Anderson model under a static magnetic field $h$ are examined by means of the standard Monte Carlo simulation on the field-shift aging protocol at temperature $T$. For each process…
We investigate the phase structure of the random-field Ising model with a bimodal random field distribution. Our aim is to test for the possibility of an equilibrium spin-glass phase, and for replica symmetry breaking (RSB) within such a…
Super-Droplet Method (SDM) is a probabilistic Monte-Carlo-type model of particle coagulation process, an alternative to the mean-field formulation of Smoluchowski. SDM as an algorithm has linear computational complexity with respect to the…
We present a fast, hierarchical, and adaptive algorithm for Metropolis Monte Carlo simulations of systems with long-range interactions that reproduces the dynamics of a standard implementation exactly, i.e., the generated configurations and…
The ordering of the three-dimensional isotropic {\it XY} spin glass with the nearest-neighbor random Gaussian coupling is studied by extensive Monte Carlo simulations. To investigate the ordering of the spin and the chirality, we compute…
It is shown, by means of Monte Carlo simulation and Finite Size Scaling analysis, that the Heisenberg spin glass undergoes a finite-temperature phase transition in three dimensions. There is a single critical temperature, at which both a…
We implemented a parallel version of the multicanonical algorithm and applied it to a variety of systems with phase transitions of first and second order. The parallelization relies on independent equilibrium simulations that only…
We review recent numerical progress in the study of finite dimensional strongly disordered magnetic systems like spin glasses and random field systems. In particular we report in some details results for the critical properties and the…
Numerical studies of shock waves in large scale systems via kinetic simulations with millions of particles are too computationally demanding to be processed in serial. In this work we focus on optimizing the parallel performance of a…
We develop an algorithm suitable for parallel molecular dynamics simulations in $d$ spatial dimensions and describe its implementation in C++. All routines work in arbitrary $d$; the maximum simulated $d$ is limited only by available…
We study the XY spin glass by large-scale Monte Carlo simulations for sizes up to 24^3, down to temperatures below the transition temperature found in earlier work. The data for the larger sizes show more marginal behavior than that for the…
Markov Chain Monte Carlo methods are algorithms used to sample probability distributions, commonly used to sample the Boltzmann distribution of physical/chemical models (e.g., protein folding, Ising model, etc.). This allows us to study…
The family of Multiscale Hybrid-Mixed (MHM) finite element methods has received considerable attention from the mathematics and engineering community in the last few years. The MHM methods allow solving highly heterogeneous problems on…
We study from tempered Monte Carlo simulations the magnetic phase diagram of a textured dipolar Ising model on a face centered cubic lattice. The Ising coupling of the model follow the dipole-dipole interaction. The Ising axes are…