bumblebee: Quantify Disease Transmission Within and Between Population Groups

A simple tool to quantify the amount of transmission of an infectious disease of interest occurring within and between population groups. 'bumblebee' uses counts of observed directed transmission pairs, identified phylogenetically from deep-sequence data or from epidemiological contacts, to quantify transmission flows within and between population groups accounting for sampling heterogeneity. Population groups might include: geographical areas (e.g. communities, regions), demographic groups (e.g. age, gender) or arms of a randomized clinical trial. See the 'bumblebee' website for statistical theory, documentation and examples <https://magosil86.github.io/bumblebee/>.

Version: 0.1.0
Depends: R (≥ 2.10)
Imports: dplyr (≥ 1.0.2), gtools (≥ 3.8.2), Hmisc (≥ 4.4-2), magrittr (≥ 2.0.1), rmarkdown (≥ 2.6)
Suggests: covr (≥ 3.5.1), knitr (≥ 1.30), markdown (≥ 1.1), testthat (≥ 3.0.1)
Published: 2021-05-11
Author: Lerato E Magosi ORCID iD [aut], Marc Lipsitch [aut], Lerato E Magosi [cre]
Maintainer: Lerato E Magosi <magosil86 at gmail.com>
BugReports: https://github.com/magosil86/bumblebee/issues
License: MIT + file LICENSE
URL: https://magosil86.github.io/bumblebee/
NeedsCompilation: no
Citation: bumblebee citation info
Materials: NEWS
CRAN checks: bumblebee results

Downloads:

Reference manual: bumblebee.pdf
Vignettes: bumblebee: Estimate transmission flows within and between population groups accounting for sampling heterogeneity.
Package source: bumblebee_0.1.0.tar.gz
Windows binaries: r-devel: bumblebee_0.1.0.zip, r-release: bumblebee_0.1.0.zip, r-oldrel: bumblebee_0.1.0.zip
macOS binaries: r-release (arm64): bumblebee_0.1.0.tgz, r-release (x86_64): bumblebee_0.1.0.tgz, r-oldrel: bumblebee_0.1.0.tgz

Linking:

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