Active Matter Evaluation Package for data analysis of active matter simulations
copied from cf-staging / amepThe Active Matter Evaluation Package (AMEP) is a powerful tool for analyzing simulation data of active matter systems. It provides a unified framework for handling both particle-based and continuum simulation data. AMEP provides a huge variety of analysis methods for both data types that allow to evaluate various dynamic and static observables based on the trajectories of the particles or the time evolution of continuum fields. For fast and efficient data handling, AMEP provides a unified framework for loading and storing simulation data and analysis results in a compressed, HDF5-based data format. AMEP is written purely in Python and uses powerful libraries such as NumPy, SciPy, Matplotlib, and scikit-image commonly used in computational physics. Therefore, understanding, modifying, and building up on the provided framework is comparatively easy. All evaluation functions are optimized to run efficiently on HPC (High Performance Computing) hardware to provide fast computations. To plot and visualize simulation data and analysis results, AMEP provides an optimized plotting framework based on the Matplotlib Python library, which allows to easily plot and animate particles, fields, and lines. Compared to other analysis libraries, the huge variety of analysis methods combined with the possibility to handle both most common data types used in soft-matter physics and in active-matter physics in particular, enables the analysis of a much broader class of simulation data including not only classical molecular-dynamics or Brownian-dynamics simulations but also any kind of numerical solutions of partial differential equations.
