report_plots function

Report plots

Returns key summary plots for estimates. May be depreciated in later releases as current S3 methods are enhanced.

report_plots(summarised_estimates, reported, target_folder = NULL, ...)

Arguments

• summarised_estimates: A data.table of summarised estimates containing the following variables: variable, median, bottom, and top.

  It should also contain the following estimates: R, infections, reported_cases_rt, and r (rate of growth).

• reported: A <data.table> of reported cases with the following variables: date, confirm.

• target_folder: Character string specifying where to save results (will create if not present).

• ...: Additional arguments passed to plot_estimates().

Returns

A named list of ggplot2 objects, list(infections, reports, R, growth_rate, summary), which correspond to a summary combination (last item) and for the leading items.

Examples

# get example output form estimate_infections
out <- readRDS(system.file(
  package = "EpiNow2", "extdata", "example_estimate_infections.rds"
))

# plot infections
plots <- report_plots(
  summarised_estimates = out$summarised,
  reported = out$observations
)
plots

See Also

plot_estimates() of summarised_estimates[variable == "infections"], summarised_estimates[variable == "reported_cases"], summarised_estimates[variable == "R"], and summarised_estimates[variable == "growth_rate"], respectively.