Infectious Disease Model Library and Utilities

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Documentation for package ‘idmodelr’ version 0.4.0

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

Help Pages

add_pointer_struct	Adds Pointer Structure to R objects
aggregate_model	A Function to Apply Multiple Aggregations to Model Output
aggregate_model_internal	An Internal Function to Aggregate Model Output Using other Idmodelr functions.
combine_strat_model_output	Reduces the Dimensionality of a Stratified Model
combine_to_age_model	Combine an Infectious Disease Model To a Demographic Model
estimate_norm_dist_from_ci	A Function to Estimate a Normal Distribution from Credible or Confidence Intervals
gather_strat_multi_variable	A Function to Gather Multiple Stratified Variables into a Tidy Format
gather_strat_variable	A Function to Gather a Stratified Variable into a Tidy Format
generate_parameter_permutations	A Function to Generate Parameter Permutations
model_details	Model Details
model_df_to_vector	Extracts a Single Column, Summarises if from Simulation
parameter_details	Parameter Details
plot_model	Plot Compartment Populations over Time for a Model Simulation
required_parameters	Lookup the Details of Parameters Required by a Model
scenario_analysis	A Function to Perform Scenario Analysis for a Generic Model Object.
SEIRS_demographics_ode	Susceptible-Exposed-Infected-Recovered-Susceptible Model with Simple Demographics
SEIRS_ode	Susceptible-Exposed-Infected-Recovered-Susceptible Model
SEIR_demographics_ode	Susceptible-Exposed-Infected-Recovered Model with Simple Demographics
SEIR_ode	Susceptible-Exposed-Infected-Recovered Model
SEIS_demographics_ode	Susceptible-Exposed-Infected-Susceptible Model with Simple Demographics
SEIS_ode	Susceptible-Exposed-Infected-Susceptible Model
SEI_demographics_ode	Susceptible-Exposed-Infected Model with Simple Demographics
SEI_ode	Susceptible-Exposed-Infected Model
SHLIR_demographics_ode	Susceptible-High-risk-latent-Low-risk-latent-Infected-Recovered Model with Simple Demographics
SHLIR_ode	Susceptible-High-risk-latent-Low-risk-latent-Infected-Recovered Model
SHLITR_demographics_ode	Susceptible-High-risk-latent-Low-risk-latent-Infected-Treated-Recovered Model with Simple Demographics
SHLITR_ode	Susceptible-High-risk-latent-Low-risk-latent-Infected-Treated-Recovered Model
SHLITR_risk_demographics_ode	Susceptible-High-risk-latent-Low-risk-latent-Infected-Treated-Recovered Model with Demographics, Stratified by Risk
SHLITR_risk_ode	Susceptible-High-risk-latent-Low-risk-latent-Infected-Treated-Recovered Model, Stratified by Risk
simulate_model	A Function to Simulate a Model from a Generic Simulation Function, with Pre and Post Processing
SIRS_demographics_ode	Susceptible-Infected-Recovered-Susceptible Model with Simple Demographics
SIRS_ode	Susceptible-Infected-Recovered-Susceptible Model
SIRS_vaccination_demographics_ode	Susceptible-Infected-Recovered-Susceptible Model with Simple Demographics and Vaccination
SIRS_vaccination_ode	Susceptible-Infected-Recovered-Susceptible Model with Vaccination
SIR_demographics_ode	Susceptible-Infected-Recovered Model with Simple Demographics
SIR_ode	Susceptible-Infected-Recovered Model
SIR_vaccination_demographics_ode	Susceptible-Infected-Recovered Model with Simple Demographics and Vaccination
SIR_vaccination_ode	Susceptible-Infected-Recovered Model with Vaccination
SIS_demographics_ode	Susceptible-Infected-Susceptible Model with Simple Demographics
SIS_ode	Susceptible-Infected-Susceptible Model
SI_demographics_ode	Susceptible-Infected Model with Simple Demographics
SI_ode	Susceptible-Infected Model
solve_ode	A Simple Wrapper for lsoda
summarise_model	Summarise a Model Simulation
summarise_strat_var	Sum a Stratified Variable
summarise_var_by_strat	Sum a Stratified Variable by Stratification Level