Self-Organizational Principles of Postsynaptic Membranes

Biophysics research boosted with data-era computational tools and algorithms.

Simulated molecular dynamics and organization on the postsynaptic membrane using Gillespie's algorithm. Implemented and unit-tested in Python 3.8, parallelized using Ray. Accelerated counting of nearest neighbors using CNN-like vectorization; see src/im2col.py and src/Synapse.py.

Usage

• Run from simulate.py
• "Content" of each simulation instance described in single_trial.py

Unit Tests

Run pytest from the repo's root directory.