We present a finite element approach for diffusion problems with thermal fluctuations based on a fluctuating hydrodynamics model. The governing transport equations are stochastic partial differential equations with a fluctuating forcing term. We propose a discrete formulation of the stochastic forcing term that has the correct covariance matrix up to a standard discretization error. Furthermore, to obtain a numerical solution with spatial correlations that converge to those of the continuum equation, we derive a linear mapping to transform the finite element solution into an equivalent discrete solution that is free from the artificial correlations introduced by the spatial discretization. The method is validated by applying it to two diffusion problems: a second-order diffusion equation and a fourth-order diffusion equation. The theoretical (continuum) solution to the first case presents spatially decorrelated fluctuations, while the second case presents fluctuations correlated over a finite length. In both cases, the numerical solution presents a structure factor that approximates well the continuum one.
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