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Bioinformatics Vol. 17 no. 6 2001
Pages 575-576
© 2001 Oxford University Press

Applications Note

STOCHSIM: modelling of stochastic biomolecular processes

Nicolas Le Novère * and Thomas Simon Shimizu

Department of Zoology, University of Cambridge, Downing Street, Cambridge CB2 3EJ, UK

Received on November 11, 2000 ; revised on February 27, 2001 ; accepted on March 1, 2001

Summary: 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.

Availability: Various ports of the program can be retrieved at ftp://ftp.cds.caltech.edu/pub/dbray/

Contact: nl223{at}cus.cam.ac.uk; tss26{at}cam.ac.uk

* To whom correspondence should be addressed.


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