epiworldR - Fast Agent-Based Epi Models
A flexible framework for Agent-Based Models (ABM), the 'epiworldR' package provides methods for prototyping disease outbreaks and transmission models using a 'C++' backend, making it very fast. It supports multiple epidemiological models, including the Susceptible-Infected-Susceptible (SIS), Susceptible-Infected-Removed (SIR), Susceptible-Exposed-Infected-Removed (SEIR), and others, involving arbitrary mitigation policies and multiple-disease models. Users can specify infectiousness/susceptibility rates as a function of agents' features, providing great complexity for the model dynamics. Furthermore, 'epiworldR' is ideal for simulation studies featuring large populations.
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abmagent-based-modelingcovid-19epidemicsepidemiologyr-programmingrpackrpkgseirseir-modelsimulationsirsir-modelquartocppopenmp
9.40 score 11 stars 2 dependents 135 scripts 648 downloads
measles - Measles Epidemiological Models
A specialized collection of measles epidemiological models built on the 'epiworldR' framework. This package is a spinoff from 'epiworldR' focusing specifically on measles transmission dynamics. It includes models for school settings with quarantine and isolation policies, mixing models with population groups, and risk-based quarantine strategies. The models use Agent-Based Models (ABM) with a fast 'C++' backend from the 'epiworld' library. Ideal for studying measles outbreaks, vaccination strategies, and intervention policies.
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abmagent-based-modelingepidemiologyindividual-based-modellingmeaslesmeasles-mumps-rubella-vacciner-programmingsimulationquartocpp
6.25 score 2 stars 10 scripts 484 downloadsSensIAT - Sensitivity Analysis for Irregular Assessment Times
Sensitivity analysis for trials with irregular and informative assessment times, based on a new influence function-based, augmented inverse intensity-weighted estimator.
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cpp
5.62 score 1 stars 12 scripts 484 downloadsepiworldRShiny - A 'shiny' Wrapper of the R Package 'epiworldR'
R 'shiny' web apps for epidemiological Agent-Based Models. It provides a user-friendly interface to the Agent-Based Modeling (ABM) R package 'epiworldR' (Meyer et al., 2023) <DOI:10.21105/joss.05781>. Some of the main features of the package include the Susceptible-Infected-Susceptible (SIS), Susceptible-Infected-Recovered (SIR), and Susceptible-Exposed-Infected-Recovered (SEIR) models. 'epiworldRShiny' provides a web-based user interface for running various epidemiological ABMs, simulating interventions, and visualizing results interactively.
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abmagent-based-modelingcovid-19epidemic-simulationsepidemiologynetscinetwork-analysisshinyappsshinydashboardsimulation-modeling
3.78 score 3 stars 5 scripts 594 downloads
defm - Estimation and Simulation of Multi-Binary Response Models
Multi-binary response models are a class of models that allow for the estimation of multiple binary outcomes simultaneously. This package provides functions to estimate and simulate these models using the Discrete Exponential-Family Models [DEFM] framework. In it, we implement the models described in Vega Yon, Valente, and Pugh (2023) <doi:10.48550/arXiv.2211.00627>. DEFMs include Exponential-Family Random Graph Models [ERGMs], which characterize graphs using sufficient statistics, which is also the core of DEFMs. Using sufficient statistics, we can describe the data through meaningful motifs, for example, transitions between different states, joint distribution of the outcomes, etc.
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ergmmlemodelingsimulationstatisticscppopenmp
3.48 score 1 stars 4 scripts 128 downloads