STOCHSIM: modelling of stochastic biomolecular processes

Bioinformatics. 2001 Jun;17(6):575-6. doi: 10.1093/bioinformatics/17.6.575.

Abstract

STOCHSIM is a stochastic simulator for chemical reactions. Molecules are represented as individual software objects that react according to probabilities derived from concentrations and rate constants. Version 1.2 of STOCHSIM provides a novel cross-platform graphical interface written in Perl/Tk. A simple two-dimensional spatial structure has also been implemented, in which nearest-neighbour interactions of molecules in a 2-D lattice can be simulated.

MeSH terms

  • Algorithms
  • Computer Graphics
  • Computer Simulation*
  • Data Display
  • Models, Chemical*
  • Molecular Conformation
  • Proteins / chemistry
  • Proteins / metabolism
  • Software*
  • Stochastic Processes*
  • User-Computer Interface

Substances

  • Proteins