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  • 21/12/2011: Version 0.07 released. ODE simulations now always start at t=0.
  • 10/11/2011: Version 0.06 released. Removed seeding option. All seeding is done via numpy
  • 06/10/2010: Version 0.04 released. Parser bug fix. Allow driven ODE and MJP processes
  • 11/08/2010: Version 0.03 released. SDE shared memory bug fix

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cuda-sim is a python package providing CUDA GPU accelerated biochemical network simulation developed within the Theoretical Systems Biology group at Imperial College London by Yanxiang Zhou and Chris Barnes.

“GPU accelerated biochemical network simulation.”
Y. Zhou, J. Liepe, X. Sheng, M.P.H. Stumpf, C. Barnes
Bioinformatics. 2011 Mar 15;27(6):874-6.



The packages in the project are still under development. If you want help, think you have found a bug or have any other enquiries about a package it should be directed towards one of the authors. There are no restrictions on the use of this code except that the developers take no liability for any problems that may arise from its use. The software is provided as is, without warranty of any kind.