A procedure is presented to estimate the diffusion coefficient of a uniform patch of argon gas in a uniform background of helium gas. Molecular Dynamics (MD) simulations of the two gases interacting through the Lennard-Jones potential are carried out using the LAMMPS software package. In addition, finite-difference (FD) calculations are used to solve the continuum diffusion equation for the argon concentration with a given diffusion coefficient. To contain the computational cost and facilitate data visualization, both MD and FD computations were done in two space dimensions. The MD argon trajectories were binned to the FD grid, and the optimal diffusion coefficient was estimated by minimizing the difference between the binned MD data and the FD solution with a nonlinear least squares procedure (Levenberg-Marquardt algorithm). Numerical results show the effect of the MD binning parameter and FD grid spacing. The estimated diffusion coefficient is compared to an experimental measurement.

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