Dynamical Systems Approach to Immune Response Modeling


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Documentation for package ‘DSAIRM’ version 0.8.7

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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 which processes and displays the documentation part for each app
generate_equations Turn a model into a set of differential equations displayed as LaTeX/HTML object
generate_fctcall A helper function that produces a call to a simulator function for specific settings
generate_ggplot A helper function that takes simulation results and produces ggplot plots
generate_plotly A helper function that takes simulation results and produces plotly 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_modelexploration Simulation to illustrate parameter scan of the basic bacteria model #'
simulate_basicbacteria_ode Basic Bacteria model - ODE
simulate_basicvirus_fit Fitting a simple viral infection models to influenza data
simulate_basicvirus_modelexploration Simulation to illustrate parameter scan of the basic virus model #'
simulate_basicvirus_ode Basic Virus model - ODE
simulate_basicvirus_stochastic Stochastic simulation of a compartmental acute virus infection model
simulate_confint_fit Fit a simple viral infection model and compute confidence intervals
simulate_drugresistance_stochastic Stochastic simulation of a compartmental acute virus infection model with treatment and drug resistant strain
simulate_fludrug_fit Fitting a simple viral infection model with 2 types of drug mechanisms to influenza data
simulate_modelcomparison_fit Fitting 2 simple viral infection models to influenza data
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