Infectious Disease Model Library and Utilities
Adds Pointer Structure to R objects
A Function to Apply Multiple Aggregations to Model Output
An Internal Function to Aggregate Model Output Using other Idmodelr fu...
Reduces the Dimensionality of a Stratified Model
Combine an Infectious Disease Model To a Demographic Model
A Function to Estimate a Normal Distribution from Credible or Confiden...
A Function to Gather Multiple Stratified Variables into a Tidy Format
A Function to Gather a Stratified Variable into a Tidy Format
A Function to Generate Parameter Permutations
idmodelr: Infectious Disease Model Library and Utilities
Extracts a Single Column, Summarises if from Simulation
Plot Compartment Populations over Time for a Model Simulation
Lookup the Details of Parameters Required by a Model
A Function to Perform Scenario Analysis for a Generic Model Object.
Susceptible-Exposed-Infected Model with Simple Demographics
Susceptible-Exposed-Infected Model
Susceptible-Exposed-Infected-Recovered Model with Simple Demographics
Susceptible-Exposed-Infected-Recovered Model
Susceptible-Exposed-Infected-Recovered-Susceptible Model with Simple D...
Susceptible-Exposed-Infected-Recovered-Susceptible Model
Susceptible-Exposed-Infected-Susceptible Model with Simple Demographic...
Susceptible-Exposed-Infected-Susceptible Model
Susceptible-High-risk-latent-Low-risk-latent-Infected-Recovered Model ...
Susceptible-High-risk-latent-Low-risk-latent-Infected-Recovered Model
Susceptible-High-risk-latent-Low-risk-latent-Infected-Treated-Recovere...
Susceptible-High-risk-latent-Low-risk-latent-Infected-Treated-Recovere...
Susceptible-High-risk-latent-Low-risk-latent-Infected-Treated-Recovere...
Susceptible-High-risk-latent-Low-risk-latent-Infected-Treated-Recovere...
Susceptible-Infected Model with Simple Demographics
Susceptible-Infected Model
A Function to Simulate a Model from a Generic Simulation Function, wit...
Susceptible-Infected-Recovered Model with Simple Demographics
Susceptible-Infected-Recovered Model
Susceptible-Infected-Recovered Model with Simple Demographics and Vacc...
Susceptible-Infected-Recovered Model with Vaccination
Susceptible-Infected-Recovered-Susceptible Model with Simple Demograph...
Susceptible-Infected-Recovered-Susceptible Model
Susceptible-Infected-Recovered-Susceptible Model with Simple Demograph...
Susceptible-Infected-Recovered-Susceptible Model with Vaccination
Susceptible-Infected-Susceptible Model with Simple Demographics
Susceptible-Infected-Susceptible Model
A Simple Wrapper for lsoda
Summarise a Model Simulation
Sum a Stratified Variable
Sum a Stratified Variable by Stratification Level
Explore a range of infectious disease models in a consistent framework. The primary aim of 'idmodelr' is to provide a library of infectious disease models for researchers, students, and other interested individuals. These models can be used to understand the underlying dynamics and as a reference point when developing models for research. 'idmodelr' also provides a range of utilities. These include: plotting functionality; a simulation wrapper; scenario analysis tooling; an interactive dashboard; tools for handling mult-dimensional models; and both model and parameter look up tables. Unlike other modelling packages such as 'pomp' (<https://kingaa.github.io/pomp/>), 'libbi' (<http://libbi.org>) and 'EpiModel' (<http://www.epimodel.org>), 'idmodelr' serves primarily as an educational resource. It is most comparable to epirecipes (<http://epirecip.es/epicookbook/chapters/simple>) but provides a more consistent framework, an R based workflow, and additional utility tooling. After users have explored model dynamics with 'idmodelr' they may then implement their model using one of these packages in order to utilise the model fitting tools they provide. For newer modellers, this package reduces the barrier to entry by containing multiple infectious disease models, providing a consistent framework for simulation and visualisation, and signposting towards other, more research focussed, resources.
Useful links