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aedseo: Automated and Early Detection of Seasonal Epidemic Onset and Burden Levels

A powerful tool for automating the early detection of seasonal epidemic onsets in time series data. It offers the ability to estimate growth rates across consecutive time intervals, calculate the sum of cases (SoC) within those intervals, and estimate seasonal onsets within user defined seasons. With use of a disease-specific threshold it also offers the possibility to estimate seasonal onset of epidemics. Additionally it offers the ability to estimate burden levels for seasons based on historical data. It is aimed towards epidemiologists, public health professionals, and researchers seeking to identify and respond to seasonal epidemics in a timely fashion.

Version: 0.3.0
Depends: R (≥ 4.2.0)
Imports: base, checkmate, dplyr, ggplot2, lifecycle, lubridate, plyr, purrr, pracma, rlang, scales, stats, stringr, tibble
Suggests: grid, ISOweek, kableExtra, knitr, mem, rmarkdown, testthat (≥ 3.0.0), tidyr, withr
Published: 2025-04-09
DOI: 10.32614/CRAN.package.aedseo
Author: Sofia Myrup Otero ORCID iD [aut], Kasper Schou Telkamp ORCID iD [aut], Lasse Engbo Christiansen ORCID iD [aut, cre], Rasmus Skytte Randløv ORCID iD [rev], Statens Serum Institut, SSI [cph, fnd]
Maintainer: Lasse Engbo Christiansen <lsec at ssi.dk>
BugReports: https://github.com/ssi-dk/aedseo/issues
License: MIT + file LICENSE
URL: https://github.com/ssi-dk/aedseo, https://ssi-dk.github.io/aedseo/
NeedsCompilation: no
Materials: README NEWS
In views: Epidemiology
CRAN checks: aedseo results

Documentation:

Reference manual: aedseo.pdf
Vignettes: Automated Detection of Seasonal Epidemic Onset and Burden Levels in R (source, R code)
Seasonal Burden Levels (source, R code)
Simulate Seasonal Epidemic Waves (source, R code)
Seasonal Epidemic Onset (source, R code)

Downloads:

Package source: aedseo_0.3.0.tar.gz
Windows binaries: r-devel: aedseo_0.1.2.zip, r-release: aedseo_0.1.2.zip, r-oldrel: aedseo_0.1.2.zip
macOS binaries: r-devel (arm64): aedseo_0.3.0.tgz, r-release (arm64): aedseo_0.3.0.tgz, r-oldrel (arm64): aedseo_0.3.0.tgz, r-devel (x86_64): aedseo_0.3.0.tgz, r-release (x86_64): aedseo_0.3.0.tgz, r-oldrel (x86_64): aedseo_0.3.0.tgz
Old sources: aedseo archive

Linking:

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These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.