Abstract: Computer implemented techniques for simulating a fluid flow about a surface of a solid are disclosed. These techniques involve receiving a model of a simulation space including a lattice structure represented as a collection of voxels and a representation of a physical object, with the voxels having appropriate resolutions to account for surfaces of the physical object. The techniques also involve simulating movement of particles in a volume of fluid, with the movement of the particles causing collisions among the particles, identifying faces between two voxels where at least one of the faces violates a stability condition, computing a modified flux using a spatially averaged gradient in the vicinity of the two voxels where the at least one of the faces violates the stability condition, and performing by the computing system, advection operations on the particles to subsequent voxels.

Abstract: A way to design a codebook for estimating the type of a molecule at a particular location in a fluorescence microscopy image makes use of one or both of (1) knowledge of the non-uniform prior distribution of molecule types (i.e., some types are known a priori to occur more frequently than others) and/or knowledge of co-occurrence of molecule types at close locations (e.g., in a same cell); and (2) knowledge of a model of the (e.g., random) process that yields the intensities that are expected at a location when a molecule with a particular subset of markers (i.e., a molecule of a type that has been assigned a codeword that defines that subset) is present at that location. The codebook design may provide experimental efficiency by reducing the number of images that need to be acquired and/or improve classification or detection accuracy by making the codewords for different molecule types more distinctive.

Abstract: Computer implemented techniques for simulating a fluid flow about a surface of a solid are disclosed. These techniques involve receiving a model of a simulation space including a lattice structure represented as a collection of voxels and a representation of a physical object, with the voxels having appropriate resolutions to account for surfaces of the physical object. The techniques also involve simulating movement of particles in a volume of fluid, with the movement of the particles causing collisions among the particles, identifying faces between two voxels where at least one of the faces violates a stability condition, computing a modified flux using a spatially averaged gradient in the vicinity of the two voxels where the at least one of the faces violates the stability condition, and performing by the computing system, advection operations on the particles to subsequent voxels.

Abstract: Methods, computer program products, and systems can be used to simulate physical processes. One of the methods includes determining an input flux to be applied to a first element. The method includes determining an applied flux, the applied flux being an amount of flux that can be applied to the first element without causing numerical instability. The method includes determining a balance flux, the balance flux being the difference between the input flux and the applied flux. The method also includes providing the balance flux to a second element.