seroincidence: Estimating Infection Rates from Serological Data

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Translates antibody levels measured in a (cross-sectional) population sample into an estimate of the frequency with which seroconversions (infections) occur in the sampled population.

Author
Peter Teunis [aut] (Author of the method and original code), Daniel Lewandowski [com, ctb] (Creator of the R package), Chantal Quinten [ctb, cre] (Project manager and the package maintainer)
Date of publication
2015-12-29 23:22:48
Maintainer
Chantal Quinten <seroincidence@ecdc.europa.eu>
License
GPL-3
Version
1.0.5
URLs

View on CRAN

Man pages

campylobacterResponseParams
Campylobacter Response Parameters Data
campylobacterSerologyData
Campylobacter Antibody Levels Data
estimateSeroincidence
Estimate Seroincidences
print.seroincidence
Print Method for Seroincidence Object
print.summary.seroincidence
Print Method for Seroincidence Summary Object
salmonellaSerologyData
Salmonella Antibody Levels Data
seroincidence
Estimating Infection Rates from Serological Data
simulateSalmonellaResponseParams
Simulate Longitudinal Response Parameters for Salmonella
simulateSerologyData
Simulate Cross-Sectional Serology Data
summary.seroincidence
Summary Method for Seroincidence Object

Files in this package

seroincidence
seroincidence/TODO
seroincidence/inst
seroincidence/inst/CITATION
seroincidence/inst/doc
seroincidence/inst/doc/installation.Rmd
seroincidence/inst/doc/tutorial.pdf
seroincidence/inst/doc/tutorial.R
seroincidence/inst/doc/cover.html
seroincidence/inst/doc/methodology.Rmd
seroincidence/inst/doc/installation.pdf
seroincidence/inst/doc/installation.R
seroincidence/inst/doc/tutorial.Rmd
seroincidence/inst/doc/cover.R
seroincidence/inst/doc/methodology.pdf
seroincidence/inst/doc/cover.Rmd
seroincidence/tests
seroincidence/tests/testthat.R
seroincidence/tests/testthat
seroincidence/tests/testthat/test.simulateSerologyData.R
seroincidence/NAMESPACE
seroincidence/NEWS
seroincidence/data
seroincidence/data/salmonellaSerologyData.RData
seroincidence/data/campylobacterResponseParams.RData
seroincidence/data/campylobacterSerologyData.RData
seroincidence/R
seroincidence/R/print.seroincidence.R
seroincidence/R/nllGamma.R
seroincidence/R/simulateSerologyData.R
seroincidence/R/logRhoCdf.R
seroincidence/R/logRhoPdf.R
seroincidence/R/salmonellaSerologyData.R
seroincidence/R/nll.R
seroincidence/R/estimateSeroincidence.R
seroincidence/R/campylobacterSerologyData.R
seroincidence/R/seroincidence.R
seroincidence/R/rinvgamma.R
seroincidence/R/print.summary.seroincidence.R
seroincidence/R/simulateSalmonellaResponseParams.R
seroincidence/R/campylobacterResponseParams.R
seroincidence/R/summary.seroincidence.R
seroincidence/vignettes
seroincidence/vignettes/installation.Rmd
seroincidence/vignettes/fig
seroincidence/vignettes/fig/ssi-cutoff2.png
seroincidence/vignettes/fig/ssi-cutoff05.png
seroincidence/vignettes/fig/RGui2.png
seroincidence/vignettes/fig/setup3.png
seroincidence/vignettes/fig/delft-cutoff0.png
seroincidence/vignettes/fig/RGui1.png
seroincidence/vignettes/fig/setup4.png
seroincidence/vignettes/fig/startMenu.png
seroincidence/vignettes/fig/RGui3.png
seroincidence/vignettes/fig/setup1.png
seroincidence/vignettes/fig/ssi-cutoff1.png
seroincidence/vignettes/fig/cutoff-salmonella-1.png
seroincidence/vignettes/fig/cutoff-campylobacter-1.png
seroincidence/vignettes/fig/delft-cutoff1.png
seroincidence/vignettes/fig/ssi-cutoff0.png
seroincidence/vignettes/fig/delft-cutoff05.png
seroincidence/vignettes/fig/delft-cutoff2.png
seroincidence/vignettes/fig/cutoff-campylobacter-2.png
seroincidence/vignettes/fig/cutoff-salmonella-2.png
seroincidence/vignettes/fig/setup2.png
seroincidence/vignettes/fig/RGui4.png
seroincidence/vignettes/fig/downloaded.png
seroincidence/vignettes/methodology.Rmd
seroincidence/vignettes/tutorial.Rmd
seroincidence/vignettes/cover.Rmd
seroincidence/README.md
seroincidence/MD5
seroincidence/build
seroincidence/build/vignette.rds
seroincidence/DESCRIPTION
seroincidence/man
seroincidence/man/campylobacterResponseParams.Rd
seroincidence/man/print.seroincidence.Rd
seroincidence/man/simulateSerologyData.Rd
seroincidence/man/campylobacterSerologyData.Rd
seroincidence/man/print.summary.seroincidence.Rd
seroincidence/man/summary.seroincidence.Rd
seroincidence/man/estimateSeroincidence.Rd
seroincidence/man/salmonellaSerologyData.Rd
seroincidence/man/simulateSalmonellaResponseParams.Rd
seroincidence/man/seroincidence.Rd