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Changelog

Source: NEWS.md

epiworldR 0.8.2.0

Changes

  • In the ModelMeaslesQuarantine model, isolated individuals now have a different parameter for the number of days in isolation. Previously, the same parameter was used for both isolated and quarantined individuals. The new parameter is isolation_period.

  • The ModelMeaslesQuarantine model changed a couple of parameter names to improve consistency. We also improved the documentation of the model.

  • The mixing models were using the wrong sampling scheme for the contact event between agents. The new implementation allows using the regular basic reproductive number calculation for its calibration.

Other Changes

  • Added more tests to the ModelMeaslesQuarantine model, as well as to the set_distribution*, distribute_*, and get_agents_states functions.

epiworldR 0.8.1.0

CRAN release: 2025-04-22

New Features

  • Adds the ModelMeaslesQuarantine model, which implements a measles model with quarantine.

  • Adds the capability of generating model diagrams using mermaid through the draw_mermaid() model function and the ModelDiagram set of functions.

Enhancements

  • Adds an advanced usage vignette.

  • Adds more extensive input parameter checks during model creation.

Bug Fixes

  • Fixes an error in the index case calculation of the Rt function. Getting the Rt was not recovering the index cases with no transmissions.

epiworldR 0.6.1.0

CRAN release: 2025-01-28

  • Updates to reflect changes in the epiworld C++ library (mostly bug fixes)

  • Package now requires R version >=4.1.0, because it uses the pipe |>

epiworldR 0.6.0.0

CRAN release: 2025-01-16

  • The package now includes the LFMCMC module that implements the likelihood-free Markov Chain Monte Carlo algorithm. This module is used to estimate the parameters of the models.

  • The new function add_param() allows the user to add parameters to the model.

  • The new function rm_globalevent() allows the user to remove global events from the model.

  • The function today() returns the current day (step) of the simulation.

  • We changed the versioning system. To allow the R package to increase version number while preserving epiworld (C++) versioning, we added a fourth number that indicates R-only patches (similar to RcppArmadillo).

epiworldR 0.3-2

CRAN release: 2024-10-08

  • Starting version 0.3-0, epiworldR is versioned using the same version as the C++ library, epiworld.

  • Adds the new mixing models ModelSIRMixing and ModelSEIRMixing.

  • Ports the Entity class. Entities are used to group agents within a model.

  • Refactors add_tool, add_virus, and add_entity simplifying syntax. Now, these functions only receive the model and object. Prevalence is specified in the object itself. add_tool_n and add_virus_n are now deprecated.

  • globalaction_* are now defunct. Use globalevent_* instead.

  • New functions to specify how viruses, tools, and entities are distributed among agents: distribute_viruses, distribute_tools, and distribute_entities.

epiworldR 0.1-0

CRAN release: 2024-04-08

  • Force model to update agents’ states when running a simulation. This was causing issues when calling run_multiple() after a single call of run(). Reported on 14.

epiworldR 0.0-4

CRAN release: 2024-02-09

  • Added missing checks of tool class when adding a model with add_too_n.

  • Various small improvements.

epiworldR 0.0-3

CRAN release: 2023-09-08

  • Added the following models: ModelSEIRD, ModelSEIRDCONN, ModelSIRD, ModelSIRDCONN, and ModelSISD.

  • Fixed a bug reported on issue 6.

epiworldR 0.0-2

CRAN release: 2023-06-21

  • Added a NEWS.md file to track changes to the package.

  • Fixed bug reported by CRAN about reference to nullptr.

  • Renamed arguments across Models in favor of consistency.

  • Figures now show virus/tool name instead of id.

  • Fixed bug in run_multiple and added more tests (C++).

  • Redid autoconf and Makevars using RcppArmadillo as a template for checking for OpenMP.