Visualise results of the provided model

Usage

plot_seromodel(
  seromodel,
  serosurvey,
  alpha = 0.05,
  bin_serosurvey = FALSE,
  bin_step = 5,
  foi_df = NULL,
  foi_max = NULL,
  loo_estimate_digits = 1,
  central_estimate_digits = 2,
  seroreversion_digits = 2,
  rhat_digits = 2,
  size_text = 11
)

Arguments

seromodel

stan_fit object obtained from sampling a model with fit_seromode

serosurvey

survey_year: Year in which the survey took place (only needed to plot time models)
age_min: Floor value of the average between age_min and age_max
age_max: The size of the sample
n_sample: Number of samples for each age group
n_seropositive: Number of positive samples for each age group

alpha

1 - alpha indicates the credibility level to be used

bin_serosurvey

If TRUE, serodata is binned by means of prepare_bin_serosurvey. Otherwise, age groups are kept as originally input.

bin_step

Integer specifying the age groups bin size to be used when bin_serosurvey is set to TRUE.

foi_df

Dataframe with columns

year/age: Year/Age (depending on the model)
foi: Force-of-infection values by year/age

foi_max

Max force-of-infection value for plotting

loo_estimate_digits

Number of loo estimate digits

central_estimate_digits

Number of central estimate digits

size_text

Size of text for plotting (base_size in ggplot2)

Value

seromodel summary plot