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EpiEstim

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A tool to estimate time varying instantaneous reproduction number during epidemics. It is described in the following paper:

@article{Cori2013, author={Cori, A and Ferguson, NM and Fraser, C and Cauchemez, S},
year={2013},
title={{A New Framework and Software to Estimate Time-Varying Reproduction Numbers During Epidemics}},
journal={Am. J. Epidemiol.},
doi={10.1093/aje/kwt133},
}

Citing this code resource

We kindly request that you cite this codebase as follows (BibTeX format):

@misc{Cori2021, author={Cori, A and Kamvar, ZN and Stockwin, J and Jombart, T and Dahlqwist, E and FitzJohn, R and Thompson, R},
year={2021},
title={{EpiEstim v2.2-3: A tool to estimate time varying instantaneous reproduction number during epidemics}},
publisher={GitHub}, journal={GitHub repository},
howpublished = {\url{https://github.com/mrc-ide/EpiEstim}}, commit={c18949d93fe4dcc384cbcae7567a788622efc781},
}

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A tool to estimate time varying instantaneous reproduction number during epidemics

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