issb: R code associated with the book chapter "Simulation of stochastic kinetic models"

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This repository contains the latex source, graphics and R code used in book chapter in "In silico Systems Biology: A systems-based approach to understanding biological processes" published by Humana Press. This book is part of the `Methods in Molecular Biology` series. The authors of this chapter are Andrew Golightly and Colin Gillespie.

Author
Colin Gillespie
Date of publication
2012-10-11 13:34:49
Maintainer
Colin Gillespie <colin.gillespie@newcastle.ac.uk>
License
GPL
Version
0.11

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Man pages

create_model
A mechanism for creating a stochastic kinetic model (skm)
deterministic
Calculates the deterministic solution of a stochastic kinetic...
diffusion
Runs the Euler-Maruyama approximation
discretise
Discretises simulator output
gillespie
Stochastic simulation using the standard Gillespie algorithm
lna
Stochastic simulation using the linear noise approximation
multiple_sims
Multiple stochastic simulation
pleap
A simple poisson leap method

Files in this package

issb
issb/R
issb/R/pleap.R
issb/R/lna.R
issb/R/gillespie.R
issb/R/diffusion.R
issb/R/discretise.R
issb/R/deterministic.R
issb/R/create_model.R
issb/R/multiple_sim.R
issb/NAMESPACE
issb/DESCRIPTION
issb/ChangeLog
issb/man
issb/man/create_model.Rd
issb/man/diffusion.Rd
issb/man/lna.Rd
issb/man/pleap.Rd
issb/man/discretise.Rd
issb/man/multiple_sims.Rd
issb/man/deterministic.Rd
issb/man/gillespie.Rd
issb/demo
issb/demo/00Index
issb/demo/lv.R