plot_diagnostic_ww: Diagnostic plot for R estimation from wastewater data

In ern: Effective Reproduction Number Estimation

Diagnostic plot for R estimation from wastewater data

Description

Diagnostic plot for R estimation from wastewater data

Usage

plot_diagnostic_ww(r.estim, caption = NULL, wrap.plots = TRUE)

Arguments

r.estim	List. Output of estimate_R_ww().
caption	Character. Optional plot caption.
wrap.plots	Logical. Wrap all diagnostic plots into one single ggplot object (default = TRUE).

Value

A ggplot object.

See Also

estimate_R_ww() plot_diagnostic_cl()

Examples

# Load data of viral concentration in wastewater
data("ww.data")

# Estimate Rt based on wastewater data
x = estimate_R_ww(
  ww.conc  = ww.data,
  dist.fec = ern::def_dist(
    dist = "gamma",
    mean = 12.9,
    mean_sd = 1.13,
    shape = 1.75,
    shape_sd = 0.26,
    max = 33
    ),
  dist.gi  = ern::def_dist(
    dist     = "gamma",
    mean     = 6.84,
    mean_sd  = 0.74,
    shape    = 2.39,
    shape_sd = 0.35,
    max      = 15
    ), 
  silent   = TRUE
)

# Diagnostic plot
g = plot_diagnostic_ww(x)
plot(g)

g2 = plot_diagnostic_ww(x, wrap.plots = FALSE, caption = "This is your caption")
plot(g2$wastewater_data)
plot(g2$inferred_incidence)
plot(g2$Rt)

ern documentation built on April 4, 2025, 2:13 a.m.