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

## Documentation for package ‘DSAIDE’ version 1.0.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

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