rprev: Estimating Disease Prevalence from Registry Data

Estimates disease prevalence for a given index date, using existing registry data extended with Monte Carlo simulations.

Install the latest version of this package by entering the following in R:
install.packages("rprev")
AuthorSimon Crouch [aut], Stephanie Lax [aut], Stuart Lacy [cre, aut]
Date of publication2017-02-13 23:47:25
MaintainerStuart Lacy <stuart.lacy@york.ac.uk>
LicenseGPL-2
Version0.2.3
https://cran.r-project.org/package=rprev

View on CRAN

Functions

determine_registry_years Man page
determine_yearly_endpoints Man page
functional_form_age Man page
incidence Man page
incidence_age_distribution Man page
mean_incidence_rate Man page
plot.incidence Man page
plot.survfit.prev Man page
population_survival_rate Man page
prevalence Man page
prevalence_counted Man page
prevalence_simulated Man page
prevsim Man page
raw_incidence Man page
rprev Man page
rprev-package Man page
summary.survfit.prev Man page
survfit.prevalence Man page
test_incidence_fit Man page
test_prevalence_fit Man page
UKmortality Man page
yearly_incidence Man page

Files

inst
inst/doc
inst/doc/user_guide.html
inst/doc/user_guide.Rmd
inst/doc/user_guide.R
tests
tests/testthat.R
tests/testthat
tests/testthat/cache
tests/testthat/cache/survival
tests/testthat/cache/survival/transform_registry_data_4.rds
tests/testthat/cache/survival/calculate_bootstrapped_coefficients_6.rds
tests/testthat/cache/survival/population_survival_rate_4.rds
tests/testthat/cache/survival/calculate_coefficients_2.rds
tests/testthat/cache/survival/registry_survival_bootstrapped_9.rds
tests/testthat/cache/survival/population_survival_rate_1.rds
tests/testthat/cache/survival/fit_weibull_4.rds
tests/testthat/cache/survival/registry_survival_bootstrapped_1.rds
tests/testthat/cache/survival/prob_alive_4.rds
tests/testthat/cache/survival/fit_weibull_6.rds
tests/testthat/cache/survival/calculate_bootstrapped_coefficients_2.rds
tests/testthat/cache/survival/calculate_coefficients_1.rds
tests/testthat/cache/survival/calculate_coefficients_3.rds
tests/testthat/cache/survival/registry_survival_bootstrapped_8.rds
tests/testthat/cache/survival/prob_alive_2.rds
tests/testthat/cache/survival/prob_alive_1.rds
tests/testthat/cache/survival/fit_weibull_1.rds
tests/testthat/cache/survival/transform_registry_data_1.rds
tests/testthat/cache/survival/population_survival_rate_5.rds
tests/testthat/cache/survival/registry_survival_bootstrapped_4.rds
tests/testthat/cache/survival/population_survival_rate_2.rds
tests/testthat/cache/survival/calculate_coefficients_4.rds
tests/testthat/cache/survival/prob_alive_5.rds
tests/testthat/cache/survival/fit_weibull_5.rds
tests/testthat/cache/survival/registry_survival_bootstrapped_7.rds
tests/testthat/cache/survival/transform_registry_data_3.rds
tests/testthat/cache/survival/registry_survival_bootstrapped_1000_3.rds
tests/testthat/cache/survival/registry_survival_bootstrapped_2.rds
tests/testthat/cache/survival/registry_survival_bootstrapped_5.rds
tests/testthat/cache/survival/registry_survival_bootstrapped_1000_2.rds
tests/testthat/cache/survival/calculate_bootstrapped_coefficients_1.rds
tests/testthat/cache/survival/population_survival_rate_3.rds
tests/testthat/cache/survival/population_survival_rate_6.rds
tests/testthat/cache/survival/calculate_bootstrapped_coefficients_4.rds
tests/testthat/cache/survival/transform_registry_data_2.rds
tests/testthat/cache/survival/fit_weibull_3.rds
tests/testthat/cache/survival/registry_survival_bootstrapped_3.rds
tests/testthat/cache/survival/prob_alive_3.rds
tests/testthat/cache/survival/fit_weibull_2.rds
tests/testthat/cache/survival/calculate_bootstrapped_coefficients_5.rds
tests/testthat/cache/survival/registry_survival_bootstrapped_6.rds
tests/testthat/cache/survival/registry_survival_bootstrapped_1000_1.rds
tests/testthat/cache/survival/calculate_bootstrapped_coefficients_3.rds
tests/testthat/cache/prevalence
tests/testthat/cache/prevalence/countedprevalence_newparam_3.rds
tests/testthat/cache/prevalence/countedprevalence_newparam_1.rds
tests/testthat/cache/prevalence/countedprevalence_1.rds
tests/testthat/cache/prevalence/countedprevalence_2.rds
tests/testthat/cache/prevalence/countedprevalence_newparam_4.rds
tests/testthat/cache/prevalence/countedprevalence_newparam_2.rds
tests/testthat/cache/diagnostics
tests/testthat/cache/diagnostics/prev_chisq.rds
tests/testthat/cache/diagnostics/sim_check_100000.rds
tests/testthat/cache/diagnostics/functional_form_age.rds
tests/testthat/cache/diagnostics/sim_check.rds
tests/testthat/cache/diagnostics/poisson_incidence_sim.rds
tests/testthat/cache/diagnostics/inspect_incidence.rds
tests/testthat/cache/incidence
tests/testthat/cache/incidence/incidence_3.rds
tests/testthat/cache/incidence/incidence_1.rds
tests/testthat/cache/incidence/meanir_3.rds
tests/testthat/cache/incidence/meanir_2.rds
tests/testthat/cache/incidence/meanir_1.rds
tests/testthat/cache/incidence/incidence_2.rds
tests/testthat/test_survival.R tests/testthat/test_prevalence.R tests/testthat/test_incidence.R tests/testthat/test_diagnostics.R
NAMESPACE
NEWS.md
data
data/prevsim.rda
data/UKmortality.rda
R
R/rprev.R R/utils.R R/survfit.prev.R R/diagnostics.R R/data.R R/prevalence.R R/survival.R R/incidence.R
vignettes
vignettes/bibliography.bib
vignettes/user_guide.Rmd
vignettes/diagram.png
README.md
MD5
build
build/vignette.rds
DESCRIPTION
man
man/incidence_age_distribution.Rd man/prevsim.Rd man/plot.survfit.prev.Rd man/test_prevalence_fit.Rd man/rprev.Rd man/prevalence_counted.Rd man/test_incidence_fit.Rd man/plot.incidence.Rd man/prevalence_simulated.Rd man/raw_incidence.Rd man/mean_incidence_rate.Rd man/prevalence.Rd man/determine_registry_years.Rd man/summary.survfit.prev.Rd man/determine_yearly_endpoints.Rd man/yearly_incidence.Rd man/functional_form_age.Rd man/population_survival_rate.Rd man/incidence.Rd man/UKmortality.Rd man/survfit.prevalence.Rd
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