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Changelog

Source: NEWS.md

mitey (development version)

mitey 0.3.0

New Features

  • Multiple restarts for EM algorithm - Added n_starts parameter to si_estim() to run the EM algorithm from multiple starting points and select the best result based on log-likelihood. This helps avoid local optima when initial values are far from the true parameters (fixes #7)

  • Convergence diagnostics - Added tol parameter to si_estim() for early stopping when parameters stabilize. Returns converged and iterations in output

  • Log-likelihood output - si_estim() now returns loglik for model comparison

  • CITATION file - Added proper citation information with Zenodo DOI and methodology paper reference

Improvements

  • Expanded test coverage with new tests for generate_synthetic_epidemic(), plot_si_fit(), convergence diagnostics, and multiple restarts
  • Updated R version requirement to R >= 4.0.0
  • Fixed dependency table in README (ggplot2 is required, brms is suggested)
  • Added codecov integration for test coverage reporting

mitey 0.2.0

CRAN release: 2025-09-02

  • CRAN release - mitey is now available on CRAN!
  • Updated function names for consistency (rt_estim() → wallinga_lipsitch())
  • Enhanced documentation and examples
  • Improved package metadata and CRAN compliance
  • All features from 0.1.0 maintained with refinements

mitey 0.1.0

  • Initial release
  • Implements Vink et al. (2014) method for serial interval estimation (si_estim())
  • Implements Wallinga & Lipsitch (2007) method for time-varying reproduction number estimation (rt_estim(), rt_estim_w_boot())
  • Includes comprehensive validation against historical datasets
  • Supports both Normal and Gamma serial interval distributions
  • Provides bootstrap confidence intervals and visualization functions
  • Developed to support epidemiological analysis in Ainslie et al. (2025)
  • Complete documentation with four vignettes demonstrating usage and validation