## All functions

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_idsurveillance_ode()

Simulation of a compartmental infectious disease transmission model illustrating the impact of ID surveillance

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