@INCOLLECTION{Hindmarsh83,
author = {Hindmarsh, A. C.},
title = {\pkg{ODEPACK}, a Systematized Collection of {ODE} Solvers},
booktitle = {Scientific Computing, Vol. 1 of IMACS Transactions on Scientific
Computation},
publisher = {IMACS / North-Holland},
year = {1983},
editor = {Stepleman, R.},
pages = {55-64},
address = {Amsterdam}
}
@inproceedings{Leisch02,
author = {Friedrich Leisch},
title = {Sweave: Dynamic Generation of Statistical Reports Using
Literate Data Analysis},
booktitle = {Compstat 2002 - Proceedings in Computational
Statistics},
pages = {575-580},
year = 2002,
editor = {Wolfgang H{\"a}rdle and Bernd R{\"o}nz},
publisher = {Physica Verlag, Heidelberg},
note = {ISBN 3-7908-1517-9},
url = {http://www.stat.uni-muenchen.de/~leisch/Sweave}
}
@Manual{LINPACK,
author={J.J. Dongarra and J.R. Bunch and C.B. Moler and G.W. Stewart},
title={LINPACK Users Guide},
year={1979},
note={SIAM}
}
@ARTICLE{Petzoldt03,
author = {Petzoldt, Thomas},
title = {R as a Simulation Platform in Ecological Modelling},
journal = {R News},
year = {2003},
volume = {3},
pages = {8-16},
number = {3}
}
@BOOK{Press92,
title = {Numerical Recipes in FORTRAN. The Art of Scientific Computing},
publisher = {Cambridge University Press},
year = {1992},
author = {Press, W H and Teukolsky, S A and Vetterling, W T and Flannery, B
P},
edition = {2nd}
}
@MANUAL{R2008,
title = {\proglang{R}: A Language and Environment for Statistical Computing},
author = {{R Development Core Team}},
organization = {R Foundation for Statistical Computing},
address = {Vienna, Austria},
year = {2008},
note = {{ISBN} 3-900051-07-0},
url = {http://www.R-project.org}
}
@Manual{rootSolve,
title = {rootSolve: Nonlinear root finding, equilibrium and steady-state analysis of ordinary differential equations},
author = {Karline Soetaert},
year = {2009},
note = {R package version 1.6},
}
@Article{deSolve,
title = {Solving Differential Equations in R: Package deSolve},
author = {Karline Soetaert and Thomas Petzoldt and R. Woodrow Setzer},
journal = {Journal of Statistical Software},
volume = {33},
number = {9},
pages = {1--25},
year = {2010},
coden = {JSSOBK},
issn = {1548-7660},
url = {http://www.jstatsoft.org/v33/i09},
keywords = {ordinary differential equations, partial differential
equations, differential algebraic equations, initial value problems,
R, FORTRAN, C},
}
@BOOK{Soetaert08,
title = {A Practical Guide to Ecological Modelling. Using \R as a Simulation Platform},
publisher = {Springer},
year = {2009},
author = {Soetaert, K and Herman, P M J},
pages = {372},
note = {ISBN 978-1-4020-8623-6},
}
@Manual{limSolve,
title = {limSolve: Solving linear inverse models},
author = {Karline Soetaert and Van den Meersche, Karel and Dick van Oevelen},
year = {2008},
note = {R package version 1.2},
}
@Manual{diagram,
title = {diagram: Functions for visualising simple graphs (networks), plotting flow diagrams},
author = {Karline Soetaert},
year = {2008},
note = {R package version 1.1},
}
@Manual{ecolMod,
title = {ecolMod: "A practical guide to ecological modelling - using R as a simulation platform"},
author = {Karline Soetaert and Peter MJ Herman},
year = {2008},
note = {R package version 1.1},
}
@Manual{shape,
title = {shape: Functions for plotting graphical shapes, colors},
author = {Karline Soetaert},
year = {2008},
note = {R package version 1.1},
}
@Manual{lecture,
title={using R for scientific computing},
author={Karline Soetaert},
year={2008},
pages={44},
address = {NIOO-CEME, Yerseke}
}
@Article{ReacTran_paper,
title = {Reactive transport in aquatic ecosystems: Rapid model prototyping in the open source software R},
author = {Karline Soetaert and Filip Meysman},
journal = {Environmental Modelling and Software},
year = {2012},
volume = {32},
pages = {49--60},
}
@Manual{ReacTran,
title = {ReacTran: Reactive transport modelling in 1D, 2D and 3D},
author = {Karline Soetaert and Filip Meysman},
year = {2009},
note = {R package version 1.1},
}
@Manual{ReacTran-vignette,
title = {ReacTran: R-package ReacTran: Reactive Transport Modelling in R},
author = {Karline Soetaert and Filip Meysman},
year = {2010},
note = {R package vignette},
}