PCSIM: A Parallel Simulation Environment for Neural Circuits Fully Integrated with Python

D. Pecevski, T. Natschlaeger, and K. Schuch

Abstract:

The Parallel Circuit SIMulator (PCSIM) is a software package for simulation of neural circuits. It is primarily designed for distributed simulation of large scale networks of spiking point neurons. Although its computational core is written in C++, PCSIM's primary interface is implemented in the Python programming language, which is a powerful programming environment and allows the user to easily integrate the neural circuit simulator with data analysis and visualization tools to manage the full neural modeling life cycle. The main focus of this paper is to describe PCSIM's full integration into Python and the benefits thereof. In particular we will investigate how the automatically generated bidirectional interface and PCSIM's object-oriented modular framework enable the user to adopt a hybrid modeling approach: using and extending PCSIM's functionality either employing pure Python or C++ and thus combining the advantages of both worlds. Furthermore, we describe several supplementary PCSIM packages written in pure Python and tailored towards setting up and analyzing neural simulations.

Reference: D. Pecevski, T. Natschlaeger, and K. Schuch. PCSIM: A parallel simulation environment for neural circuits fully integrated with Python. Frontiers in Neuroinformatics, 3, 2009. doi:10.3389/neuro.11.011.2009.