bumblebee: Quantify Disease Transmission Within and Between PopulationGroups
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 |
| DOI: | 10.32614/CRAN.package.bumblebee |
| Author: | Lerato E Magosi [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 + fileLICENSE |
| URL: | https://magosil86.github.io/bumblebee/ |
| NeedsCompilation: | no |
| Citation: | bumblebee citation info |
| Materials: | NEWS |
| CRAN checks: | bumblebee results |
Documentation:
| Reference manual: | bumblebee.html ,bumblebee.pdf |
| Vignettes: | bumblebee: Estimate transmission flows within and between population groups accounting for sampling heterogeneity. (source,R code) |
Downloads:
| 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-oldrel (arm64):bumblebee_0.1.0.tgz, r-release (x86_64):bumblebee_0.1.0.tgz, r-oldrel (x86_64):bumblebee_0.1.0.tgz |
Linking:
Please use the canonical formhttps://CRAN.R-project.org/package=bumblebeeto link to this page.