E-Cell System 3.2.2

A modelling and simulation software environment.
E-Cell System is a concept of constructing virtual cells on computers.

E-Cell System is an object-oriented software suite for modeling, simulation, and analysis of large scale complex systems such as biological cells, architected by Kouichi Takahashi and written by a wonderful team of developers. Core part of the system, E-Cell Simulation Environment version 3, allows many components driven by multiple algorithms with different timescales to coexist.

E-Cell Project is an international research project aiming at developing necessary theoretical supports, technologies and software platforms to allow precise whole cell simulation.

E-Cell System consists of the following three major parts:

- E-Cell Simulation Environment (or E-Cell SE)
- E-Cell Modeling Environment (or E-Cell ME)
- E-Cell Analysis Toolkit

Main features:

  • Basic capabilities:
  • Object-oriented modeling and simulation of complex systems.
  • Plug-in architecture. New user-object classes can be developed, dynamically loaded, and used in simulation.
  • Real-time user interaction and visualization during the simulation.
  • Scripting:
  • Python scripting of a simulation session (run/stop/parameter manipulation/data processing etc...).
  • Python scripting of a simulation experiment that involves many runs of the simulation sessions (such as parameter tuning, metabolic control analysis etc..)
  • Python scripting of model file generation (e.g. for automated model construction from databases).
  • Compatibilities:
  • SBML level 1/2 importing.
  • SBML level 1/2 exporting.
  • Parallel computation:
  • Shared-memory, multi-thread parallelization of a single simulation session. (to be merged into the main branch.)
  • Cluster and grid distributed computation of multiple simulation sessions. Sun Grid Engine, (Globus toolkit).

last updated on:
October 26th, 2011, 13:45 GMT
license type:
GPL (GNU General Public License) 
developed by:
Kouichi Takahashi
ROOT \ Science and Engineering \ Bioinformatics
E-Cell System
Download Button

In a hurry? Add it to your Download Basket!

user rating 21



Rate it!
What's New in This Release:
  • This version adds various bugfixes.
read full changelog

Add your review!