xCellerator Files

README.txt for xCellerator
==========================

Which package should I download?

- xCellerator (same thing as xlr8r) - for deterministic simulations
  in Mathematica. Converts reactions expressed as Cellerator Arrows
  into Differential equations, then solves the ODES. xlr8r is the 
  successor to the earlier Cellerator program. Requires a minimal
  installation of MathSBML which is also included in the zip file.

- SSA - for stochastic simulations based on Cellerator arrows. The
  latest version is called xSSAlite and incorporates all Cellerator
  Mass-Action arrows

- Cellzilla - for simulations on fixed-two-dimensional templates. The
  Latest version is called Cellzilla2D. The simulations may be either
  deterministic (in which xlr8r is also required) or stochastic (in 
  which case xSSAlite is also required).

- CelleratorML - a form of XML used to save Cellerator models. 

- xlr8r2SBML and SBML2xlr8r - convert between Cellerator models and 
  SBML. Requires xlr8r and MathSBML. 

- mQhull and mPower - Voronoi/Delaunay/Power Diagram libray interface
  for Mathematica. These are no longer used by any of the other
  programs here, but you may find them useful for other work. 

- MathSBML - basic libraries for SBML and simulation that are used 
  by xlr8r. A basic installation is provided here; for a full 
  installation including all plugins go to http://sbml.org