epidWaves

epidWaves: A code for fitting multi-wave epidemic models is a Matlab/Python package to fit multi-wave statistical models to the complex epidemic data. It is based on a parametric statistical framework that combines surveillance data, nonlinear regression, and information criteria to obtain a statistical model capable of describing multi-wave epidemic outbreaks.

Software History

This package emerged from the combination of several codes used by authors in different publications:

A. Cunha Jr, F. C. Batista, P. R. L. Gianfelice, R. S. Oyarzabal, J. M. V. Grzybowsk, and E. E. N. Macau, epidWaves: A code for fitting multi-wave epidemic models, 14:100391, 2022 https://doi.org/10.1016/j.simpa.2022.100391
P. R. L. Gianfelice, R. S. Oyarzabal, A. Cunha Jr, J. M. V. Grzybowsk, F. C. Batista, and E. E. N. Macau, The starting dates of COVID-19 multiple waves, Chaos, 32:031101, 2022 https://doi.org/10.1063/5.0079904
Pavlack et al., EPIDEMIC - Epidemiology Educational Code, Journal of Open Source Education, 5(50), 149, 2022 https://doi.org/10.21105/jose.00149
F. Batista, A. Cunha Jr., Inferência dos Estágios Iniciais da COVID-19 em Portugal, In: XXIII Congresso Brasileiro de Automática (CBA 2020), 2020, Congresso Virtual, Brazil.

Reproducibility

Curve fittings done with epidWaves in the Chaos paper are fully reproducible, as can be seen on this CodeOcean capsule

Authors

Americo Cunha Jr
Fernando da Conceição Batista
Paulo Roberto de Lima Gianfelice
Ricardo Sovek Oyarzabal
Jose Mario Vicensi Grzybowsk
Elbert E. N. Macau

Citing epidWaves

We ask users to cite the following manuscripts in any publications reporting work done with epidWaves:

A. Cunha Jr, F. C. Batista, P. R. L. Gianfelice, R. S. Oyarzabal, J. M. V. Grzybowsk, and E. E. N. Macau, epidWaves: A code for fitting multi-wave epidemic models, 14:100391, 2022 https://doi.org/10.1016/j.simpa.2022.100391
P. R. L. Gianfelice, R. S. Oyarzabal, A. Cunha Jr, J. M. V. Grzybowsk, F. C. Batista, and E. E. N. Macau, The starting dates of COVID-19 multiple waves, Chaos, 32:031101, 2022 https://doi.org/10.1063/5.0079904

@article{epidWaves2022,
   author  = {A {Cunha~Jr} and F C Batista and P. R. L. Gianfelice and R S Oyarzabal and J M V Grzybowsk and E E N Macau},
   title   = {epidWaves: A code for fitting multi-wave epidemic models},
   journal = {Software Impacts},
   year    = {2022},
   volume  = {14},
   pages   = {100391},
   note    = {https://doi.org/10.1016/j.simpa.2022.100391},
}

@article{Gianfelice2022p031101,
   author  = {P. R. L. Gianfelice and R S Oyarzabal and A {Cunha~Jr} and J M V Grzybowsk and F C Batista and E E N Macau},
   title   = {The starting dates of COVID-19 multiple waves},
   journal = {Chaos},
   year    = {2022},
   volume  = {32},
   pages   = {031101},
   note    = {https://doi.org/10.1063/5.0079904},
}

License

epidWaves is released under the MIT license. See the LICENSE file for details. All new contributions must be made under the MIT license.