R: Model Infectious Disease Parameters from Serosurveys

# Model Infectious Disease Parameters from Serosurveys

## Documentation for package ‘serosv’ version 1.1.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

serosv-package | serosv: model infectious disease parameters
compare_models | Compare models
compute_ci | Compute confidence interval
compute_ci.fp_model | Compute confidence interval for fractional polynomial model
compute_ci.lp_model | Compute confidence interval for local polynomial model
compute_ci.mixture_model | Compute confidence interval for mixture model
compute_ci.penalized_spline_model | Compute confidence interval for penalized_spline_model
compute_ci.weibull_model | Compute confidence interval for Weibull model
correct_prevalence | Estimate the true sero prevalence using Bayesian estimation
estimate_from_mixture | Estimate seroprevalence and foi by combining mixture model and regression
est_foi | Estimate force of infection
farrington_model | The Farrington (1990) model.
find_best_fp_powers | Returns the powers of the GLM fitted model which has the lowest deviance score.
fp_model | A fractional polynomial model.
hav_be_1993_1994 | Hepatitis A serological data from Belgium in 1993 and 1994 (aggregated)
hav_be_2002 | Hepatitis A serological data from Belgium in 2002 (line listing)
hav_bg_1964 | Hepatitis A serological data from Bulgaria in 1964 (aggregated)
hbv_ru_1999 | Hepatitis B serological data from Russia in 1999 (aggregated)
hcv_be_2006 | Hepatitis C serological data from Belgium in 2006 (line listing)
hierarchical_bayesian_model | Hierarchical Bayesian Model
lp_model | A local polynomial model.
mixture_model | Fit a mixture model to classify serostatus
mseir_model | MSEIR model
mumps_uk_1986_1987 | Mumps serological data from the UK in 1986 and 1987 (aggregated)
parvob19_be_2001_2003 | Parvo B19 serological data from Belgium from 2001-2003 (line listing)
parvob19_ew_1996 | Parvo B19 serological data from England and Wales in 1996 (line listing)
parvob19_fi_1997_1998 | Parvo B19 serological data from Finland from 1997-1998 (line listing)
parvob19_it_2003_2004 | Parvo B19 serological data from Italy from 2003-2004 (line listing)
parvob19_pl_1995_2004 | Parvo B19 serological data from Poland from 1995-2004 (line listing)
pava | Monotonize seroprevalence
penalized_spline_model | Penalized Spline model
plot.estimate_from_mixture | plot() overloading for result of estimate_from_mixture
plot.farrington_model | plot() overloading for Farrington model
plot.fp_model | plot() overloading for fractional polynomial model
plot.hierarchical_bayesian_model | plot() overloading for hierarchical_bayesian_model
plot.lp_model | plot() overloading for local polynomial model
plot.mixture_model | plot() overloading for mixture model
plot.mseir_model | plot() overloading for MSEIR model
plot.penalized_spline_model | plot() overloading for penalized spline
plot.polynomial_model | plot() overloading for polynomial model
plot.sir_basic_model | plot() overloading for SIR model
plot.sir_static_model | plot() overloading for SIR static model
plot.sir_subpops_model | plot() overloading for SIR sub populations model
plot.weibull_model | plot() overloading for Weibull model
plot_gcv | Plotting GCV values with respect to different nn-s and h-s parameters.
polynomial_model | Polynomial models
rubella_mumps_uk | Rubella - Mumps data from the UK (aggregated)
rubella_uk_1986_1987 | Rubella serological data from the UK in 1986 and 1987 (aggregated)
serosv | serosv: model infectious disease parameters
set_plot_style | Helper to adjust styling of a plot
sir_basic_model | Basic SIR model
sir_static_model | SIR static model (age-heterogeneous, endemic equilibrium)
sir_subpops_model | SIR Model with Interacting Subpopulations
tb_nl_1966_1973 | Tuberculosis serological data from the Netherlands 1966-1973 (aggregated)
transform_data | Generate a dataframe with 't', 'pos' and 'tot' columns from 't' and 'seropositive' vectors.
vzv_be_1999_2000 | VZV serological data from Belgium (Flanders) from 1999-2000 (aggregated)
vzv_be_2001_2003 | VZV serological data from Belgium from 2001-2003 (line listing)
vzv_parvo_be | VZV and Parvovirus B19 serological data in Belgium (line listing)
weibull_model | The Weibull model.