WhiteLabRt-package

WhiteLabRt

A collection of functions related to novel methods for
estimating reproduction number, R(t), created by the lab of
Professor Laura White at Boston University School of Public Health.
Currently implemented methods include (1) Temporal R(t) estimation:
Two-step Bayesian back and nowcasting for linelist data with missing
reporting delays, adapted in 'STAN' from
<a href="https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1009210">Li et. al. 2021</a>,
and (2) Spatial R(t) estimation: Calculating time-varying reproduction number,
R(t), assuming a flux of infectors between various adjacent states,
in 'STAN' from <a href="https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1010434">Zhou et. al. 2021</a>.

A collection of functions related to novel methods for estimating R(t),
created by the lab of Professor Laura White. Currently implemented methods include
two-step Bayesian back-calculation and now-casting for line-list data with missing reporting delays,
adapted in 'STAN' from Li (2021) <doi:10.1371/journal.pcbi.1009210>,
and calculation of time-varying reproduction number assuming a flux between various adjacent states, adapted into 'STAN' from
Zhou (2021) <doi:10.1371/journal.pcbi.1010434>.

Chad Milando

Novel Methods for Reproduction Number Estimation,
Back-Calculation, and Forecasting

Tenglong Li

Zhenwei Zhou

Laura White

WhiteLabRt-package function

Maintainer: Chad Milando <a href="/link/cmilando%40bu.edu?package=WhiteLabRt&version=1.0.1" data-mini-rdoc="WhiteLabRt::cmilando@bu.edu">cmilando@bu.edu</a>
Other contributors:<ul>
<li>Tenglong Li [contributor]</li>
<li>Zhenwei Zhou [contributor]</li>
<li>Laura White [contributor]</li>
</ul>

Author

A collection of functions related to novel methods for
estimating reproduction number, R(t), created by the lab of
Professor Laura White at Boston University School of Public Health.
Currently implemented methods include (1) Temporal R(t) estimation:
Two-step Bayesian back and nowcasting for linelist data with missing
reporting delays, adapted in 'STAN' from
<a href='https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1009210'>Li et. al. 2021</a>,
and (2) Spatial R(t) estimation: Calculating time-varying reproduction number,
R(t), assuming a flux of infectors between various adjacent states,
in 'STAN' from <a href='https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1010434'>Zhou et. al. 2021</a>.

The 'WhiteLabRt' package. — WhiteLabRt-package

Maintainer: Chad Milando <a href='mailto:cmilando@bu.edu'>cmilando@bu.edu</a>
Other contributors:<ul>
<li>Tenglong Li [contributor]</li>
<li>Zhenwei Zhou [contributor]</li>
<li>Laura White [contributor]</li>
</ul>

WhiteLabRt-package: The 'WhiteLabRt' package.

Description

Arguments

Author

References