R: A Code Generator for ODE-Based Models

# A Code Generator for ODE-Based Models

## Documentation for package ‘rodeo’ version 0.9.2

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package README

## Help Pages

rodeo-package | Package to Facilitate ODE-Based Modeling
buildFromText | Build a model from the contents of delimited textfiles
buildFromWorkbook | Build a model from the contents of a workbook
compile | Generate Executable Code
dynamics | Numerical Integration
exportDF | Export a Data Frame as HTML/TEX Code
finalize | Clean-up a 'rodeo' Object
forcingFunctions | Generation of Forcing Functions in Fortran
forcings_clear | Clear forcing data of a Fortran-based model
forcings_init | Initialize forcings of a Fortran-based model
funs | Declaration of Functions
generate | Code Generator
getPars | Query Values of Parameters
getVars | Query Values of State Variables
initialize | Initialize a 'rodeo' Object
initStepper | Initialize Internal ODE Solver
libFunc | Return name of library function
libName | Return library name
new | Initialize a 'rodeo' Object
pars | Declaration of Parameters
plotStoichiometry | Plot Qualitative Stoichiometry Matrix
pros | Declaration of Processes
rodeo | 'rodeo' Class
rodeo-class | 'rodeo' Class
scenarios | Run a zero-dimensional model, possibly for multiple scenarios
setPars | Assign Values to Parameters
setVars | Assign Values to State Variables
step | Numerical Integration Over a Single Time Step
stoi | Specification of Stoichiometry
stoiCheck | Validation of a Stoichiometry Matrix
stoichiometry | Return the Stoichiometry Matrix
stoiCreate | Stoichiometry Matrix from Reaction Equations
vars | Declaration of Variables