DSAIRM - Dynamical Systems Approach to Immune Response Modeling
A collection of Shiny/R Apps to explore and simulate infection and immune response dynamics.

This is DSAIRM version 0.9.3 last updated 2021-07-26.
Written and maintained by Andreas Handel with contributions from others.
More information can be found on the package website.
The Basics
Model Exploration Examples
Uncertainty and Sampling
Model Fitting Topics
Further Topics
This collection of model simulations/apps covers within-host and immune response modeling from a dynamical systems perspective. The software is meant to provide you with a "learning by doing" approach. You will likely learn best and fastest by using this software as part of a course on the topic, taught by a knowledgable instructor who can provide any needed background information and help if you get stuck. Alternatively, you should be able to self-learn and obtain the needed background information by going through the materials listed in the "Further Information" section of the apps.
The main way of using the simulations is through this graphical interface. You can also access the simulations directly. This requires a bit of R coding but gives you many more options of things you can try. See the package vignette/tutorial or the Further Information section of the apps for more on that.
The simulations are ordered in a sequence that makes sense for learning the material, so if you are completely new to this, it is best to go in order (each section top to bottom, within each section left to right). Some simulations also build on earlier ones.

Have fun exploring the models!

All text and figures are licensed under a Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International License. Software/Code is licensed under GPL-3.
This project was/is partially supported by NIH grants U19AI117891, U01AI150747, R25AI147391 and R25GM089694.