cfr: Estimate Disease Severity and Case Ascertainment

Estimate the severity of a disease and ascertainment of cases, as discussed in Nishiura et al. (2009) <doi:10.1371/journal.pone.0006852>.

Version: 0.2.0
Depends: R (≥ 3.5.0)
Imports: checkmate, stats
Suggests: bookdown, data.table, distcrete, distributional, dplyr, forcats, ggplot2, incidence2, knitr, magrittr, purrr, rmarkdown, scales, spelling, testthat (≥ 3.0.0), tidyr
Published: 2025-02-21
DOI: 10.32614/CRAN.package.cfr
Author: Pratik R. Gupte ORCID iD [aut, cph], Adam Kucharski ORCID iD [aut, cph, cre], Tim Russell ORCID iD [aut, cph], Joshua W. Lambert ORCID iD [rev], Hugo Gruson ORCID iD [rev], Tim Taylor ORCID iD [rev], James M. Azam ORCID iD [rev], Abdoelnaser M. Degoot ORCID iD [rev], Sebastian Funk ORCID iD [rev]
Maintainer: Adam Kucharski <adam.kucharski at lshtm.ac.uk>
BugReports: https://github.com/epiverse-trace/cfr/issues
License: MIT + file LICENSE
URL: https://github.com/epiverse-trace/cfr, https://epiverse-trace.github.io/cfr/
NeedsCompilation: no
Language: en-GB
Materials: README, NEWS
In views: Epidemiology
CRAN checks: cfr results

Documentation:

Reference manual: cfr.html , cfr.pdf
Vignettes: Estimating disease severity while correcting for reporting delays (source, R code)
Handling data from {incidence2} (source, R code)
A primer on working with delay distributions (source, R code)
Estimating the proportion of cases that are ascertained during an outbreak (source, R code)
Estimating fatality risk from individual level data (source, R code)
Calculating a static, delay-adjusted estimate of disease severity (source, R code)
Estimating how disease severity varies over the course of an outbreak (source, R code)
Software permissions and regulations (source, R code)

Downloads:

Package source: cfr_0.2.0.tar.gz
Windows binaries: r-devel: cfr_0.2.0.zip, r-release: cfr_0.2.0.zip, r-oldrel: cfr_0.2.0.zip
macOS binaries: r-release (arm64): cfr_0.2.0.tgz, r-oldrel (arm64): cfr_0.2.0.tgz, r-release (x86_64): cfr_0.2.0.tgz, r-oldrel (x86_64): cfr_0.2.0.tgz
Old sources: cfr archive

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