plot: Create a complete 'ggplot' appropriate to a particular data...

In aedseo: Automated and Early Detection of Seasonal Epidemic Onset and Burden Levels

Create a complete 'ggplot' appropriate to a particular data type

Description

This function generates a complete 'ggplot' object suitable for visualizing time series data in tsd, tsd_onset, tsd_onset_and_burden or tsd_growth_warning objects.

Usage

## S3 method for class 'tsd'
plot(x, ...)

## S3 method for class 'tsd_onset'
plot(x, ...)

## S3 method for class 'tsd_onset_and_burden'
plot(x, ...)

## S3 method for class 'tsd_growth_warning'
plot(x, ...)

Arguments

x	An tsd, tsd_onset, tsd_onset_and_burden or tsd_growth_warning object
...	Additional arguments passed to autoplot().

Value

A 'ggplot' object for visualizing output from desired method.

See Also

autoplot()

Examples

# set.seed(321)
# Create and plot `tsd` object
tsd_obj <- generate_seasonal_data(
  years = 3,
  phase = 1,
  start_date = as.Date("2021-10-18")
)
plot(tsd_obj)

disease_threshold <- 150

# Create and plot `tsd_onset` object
tsd_onset_obj <- seasonal_onset(
  tsd = tsd_obj,
  k = 3,
  level = 0.95,
  disease_threshold = disease_threshold,
  family = "quasipoisson"
)
plot(tsd_onset_obj)

# Create a `tsd_onset_and_burden` object
tsd_onset_burden_obj <- combined_seasonal_output(
  tsd = tsd_obj,
  disease_threshold = disease_threshold
)
plot(tsd_onset_burden_obj,
     y_lower_bound = ifelse(disease_threshold < 10, 1, 5))

# Create a `tsd_growth_warning` object
tsd_onset_seasons <- seasonal_onset(
  tsd = tsd_obj,
  season_start = 21,
  family = "quasipoisson",
  only_current_season = FALSE
)
tsd_gr_w <- consecutive_growth_warnings(tsd_onset_seasons)
plot(tsd_gr_w)

aedseo documentation built on April 12, 2025, 1:35 a.m.