Dynamical Systems Approach to Infectious Disease Epidemiology (Ecology/Evolution)


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Documentation for package ‘DSAIDE’ version 0.9.1

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DSAIDE DSAIDE: A package to learn about Dynamical Systems Approaches to Infectious Disease Epidemiology
dsaidemenu The main menu for the DSAIDE package
flu1918data 1918 Influenza mortality data
generate_documentation A helper function which processes and displays the documentation part for each app
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
norodata Cases of norovirus during an outbreak
run_model A function that runs an app for specific settings and processes results for plot and text generation
simulate_Characteristics_of_ID_ode Characteristics of ID
simulate_Complex_ID_Control_ode Complex ID Control
simulate_directtransmission_ode Simulation of a compartmental infectious disease transmission model illustrating different types of direct transmission
simulate_Drug_Resistance_Evolution_stochastic Drug Resistance Evolution
simulate_Environmental_Transmission_model_ode Environmental Transmission model
simulate_flu_fit Fitting a SIR-type model to flu data
simulate_Host_Heterogeneity_Model_ode Host Heterogeneity Model
simulate_idcontrolmultigroup_ode Simulation of a compartmental infectious disease transmission model with 3 types of hosts and intervention
simulate_idcontrolmultioutbreak_ode Simulation of a compartmental infectious disease transmission model to study the reproductive number
simulate_idpatterns_ode Simulation of a compartmental infectious disease transmission model including seasonality
simulate_idvaccine_ode Simulation of a compartmental infectious disease transmission model to study the reproductive number
simulate_multipathogen_ode Simulation of a compartmental infectious disease transmission model with 2 types of pathogens
simulate_noro_fit Fitting a simple SIR type model to norovirus outbreak data
simulate_SEIRSd_model_stochastic SEIRSd model
simulate_SIRSd_model_ode SIRSd model
simulate_SIRSd_model_stochastic SIRSd model
simulate_SIR_modelexploration Simulation to illustrate parameter scan of the basic SIR model with births and deaths #'
simulate_SIR_model_discrete SIR model
simulate_SIR_model_ode SIR model
simulate_SIR_usanalysis Simulation to illustrate uncertainty and sensitivity analysis
simulate_Vector_transmission_model_ode Vector transmission model