rxode2 user manual

Matthew Fidler, Melissa Hallow, Wenping Wang

2023-08-26

Chapter 1 Introduction

Welcome to the rxode2 user guide; rxode2 is an R package for solving and simulating from ode-based models. These models are convert the rxode2 mini-language to C and create a compiled dll for fast solving. ODE solving using rxode2 has a few key parts:

• rxode2() which creates the C code for fast ODE solving based on a simple syntax (Chapter 6) related to Leibnitz notation.

• The event data, which can be:

  • a NONMEM or deSolve compatible data frame (Chapter 7), or
  • created with et() or EventTable() for easy simulation of events (Chapter 11)
  • The data frame can be augmented by adding time varying or adding individual covariates (iCov= as needed)

• rxSolve() which solves the system of equations using initial conditions and parameters to make predictions

  • With multiple subject data, this may be parallelized.
  • With single subject the output data frame is adaptive
  • Covariances and other metrics of uncertainty can be used to simulate while solving.

While this is the user guide, there are other places that you can visit for help:

• rxode2 github pkgdown page

• rxode2 tutorial (accessible in tutorials in Rstudio 1.3+)

• rxode2 github discussions

• There is an Chinese rxode2 manual translated by Fu Yongchao which was translated based on the manual dated June 9, 2023.

This book was assembled on Sat Aug 26 23:37:00 2023 with rxode2 version 2.0.13.9000 automatically by github actions.