Explore projects

Data and code for "impossible ecologies" paper

Image-based pipeline for solving inhomogeneous reaction-diffusion PDEs in real-world porous geometries. Level-set method (multi-CPU) for reconstruction. Sparse grids (multi-GPU) for diffusion simulation. Parallel data structures from OpenFPM.

Geometric computation benchmarks with classic numerical schemes for comparison with Global Polynomial Level Set method.

Implementation of Gaussian Next Subvolume Method (GNSM), which generates trajectories for Gaussian Reaction Diffusion Master Equation (GRDME)

Region Competition algorithm implemented as an ITK filter (C++).

Implementation of the fast curvature filters for images.

MSS trajectory analysis

Brownian dynamics simulation of cross-linked filament bundles

Exact stochastic simulation of intracellular transport

pSSAlib: Stochastic chemical network and reaction-diffusion simulation

PPM client for diffusion on curved surfaces

PPM_RC: Distributed-Memory Parallel Image Segmentation