The R0 package: a toolbox to estimate reproduction numbers for epidemic outbreaks
By Thomas Obadia, Romana Haneef, Pierre-Yves Boëlle. BMC Medical Informatics and Decision Making, 2012
309 citations recorded by the source corpus.
BackgroundSeveral generic methods have been proposed to estimate transmission parameters during an outbreak, especially the reproduction number. However, as of today, no dedicated software exists that implements these methods and allow comparisons.ResultsA review of generic methods used to estimate transmissibility parameters during outbreaks was carried out. Most methods used the epidemic curve and the generation time distribution. Two categories of methods were available: those estimating the initial reproduction number, and those estimating a time dependent reproduction number. We implemented five methods as an R library, developed sensitivity analysis tools for each method and provided numerical illustrations of their use. A comparison of the performance of the different methods on simulated datasets is reported.ConclusionsThis software package allows a standardized and extensible approach to the estimation of the reproduction number and generation interval distribution from epidemic curves.
Subfields: Modeling and Simulation, Public Health, Environmental and Occupational Health
View Paper: https://www.semanticscholar.org/paper/d25e47d07599eecc69fdce45d2c4b7dcc092dbe0
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In Modeling and Simulation
Citations in the corpus
- Improved inference of time-varying reproduction numbers during infectious disease outbreaks (2019, methodology): “cause of the importance of tracking temporal changes in epidemiological parameters, software implementing the framework of Wallinga and Teunis (2004) was developed to allow such analyses to be performed (Obadia et al., 2012).”
- The challenges of modeling and forecasting the spread of COVID-19 (2020, unknown): “The distribution of 134 inter-event times w(ti− tj) is a gamma or Weibull distribution 135 (11, 33, 34) with shape parameter k and scale parameter b.”