All functions

DSAIRM

DSAIRM: A package to learn about Dynamical Systems Approaches to Immune Response Modeling

dsairmmenu()

The main menu for the DSAIRM package

generate_documentation()

A helper function for the UI part of the Shiny apps

generate_fctcall()

A helper function that produces a call to a simulator function for specific settings

generate_ggplot()

A helper function that takes result from the simulators and produces plots

generate_plotly()

A helper function that takes result from the simulators and produces plots

generate_shinyinput()

A helper function that takes a model and generates shiny UI elements

generate_text()

A helper function that takes result from the simulators and produces text output

hayden96flu

Influenza virus load data

run_model()

A function that runs an app for specific settings and processes results for plot and text generation

simulate_basicbacteria_discrete()

Basic Bacteria model - discrete

simulate_basicbacteria_ode()

Basic Bacteria model - ODE

simulate_basicvirus_ode()

Basic Virus model - ODE

simulate_basicvirus_stochastic()

Stochastic simulation of a compartmental acute virus infection model

simulate_drugresistance_stochastic()

Stochastic simulation of a compartmental acute virus infection model with treatment and drug resistant strain

simulate_fit_basicmodel()

Fitting a simple viral infection models to influenza data

simulate_fit_confint()

Fit a simple viral infection model and compute confidence intervals

simulate_fit_fludrug()

Fitting a simple viral infection model with 2 types of drug mechanisms to influenza data

simulate_fit_modelcomparison()

Fitting 2 simple viral infection models to influenza data

simulate_modelexploration()

Simulation to illustrate parameter scan of the basic bacteria model #'

simulate_modelvariants_ode()

Simulation of a viral infection model with immune response The simulation illustrates different alternative models.

simulate_pkpdmodel_ode()

PkPd Virus model

simulate_usanalysis()

Simulation to illustrate uncertainty and sensitivity analysis

simulate_virusandir_ode()

Simulation of a viral infection model with an immune response

simulate_virusandtx_ode()

Simulation of a basic viral infection model with drug treatment