Package: rodeo 0.9.2

Main features of rodeo | Basic use | Example ODE system | Creating a rodeo model object | Defining functions and assigning data | Computing the stoichiometry matrix | Generating source code for numerical solvers | Numerical integration | Advanced topics | Multi-box models | Characteristics and use of multi-box models | Non-interacting boxes | Interacting boxes | Maximizing performance through Fortran | Forcing functions (time-varying parameters) | Generating model documentation | Exporting formatted tables | Visualizing the stoichiometry matrix | Plain R graphics | LaTeX documents | HTML documents | Markdown documents | Practical issues | Managing tabular input data | Stoichiometric matrices | What should go in the matrix? | Automatic creation | Model verification based on row sums | Writing rodeo-compatible Fortran functions | Reference example | Common Fortran pitfalls | Double precision constants | Integers in numeric expressions | Long Fortran statements (continuation lines) | More information on Fortran | Multi-object models | Further examples | Single-box models | Streeter-Phelps like model | Problem description | Tabular model definition | Implementation of functions | R code to run the model | Model output | Bacteria in a 2-zones stirred tank | One-dimensional models | Diffusion | Advective-dispersive transport | Ground water flow | Antibiotic resistant bacteria in a river | R code with corresponding graphical outputs | Multi-object models | Water-sediment interaction | Single-object version | Multi-object version | References