autoplot.summary.seroincidence.by: Plot method for 'summary.seroincidence.by' objects

In serocalculator: Estimating Infection Rates from Serological Data

Plot method for summary.seroincidence.by objects

Description

Plot method for summary.seroincidence.by objects

Usage

## S3 method for class 'summary.seroincidence.by'
autoplot(object, xvar, alpha = 0.7, shape = 1, width = 0.001, ...)

Arguments

object	a summary.seroincidence.by object (generated by applying the summary() method to the output of est.incidence.by()).
xvar	the name of a stratifying variable in object
alpha	transparency for the points in the graph (1 = no transparency, 0 = fully transparent)
shape	shape argument for geom_point()
width	width for jitter
...	unused

Value

a ggplot2::ggplot() object

Examples

library(dplyr)
library(ggplot2)

xs_data <-
  sees_pop_data_pk_100

curve <-
  typhoid_curves_nostrat_100 %>%
  filter(antigen_iso %in% c("HlyE_IgA", "HlyE_IgG"))

noise <-
  example_noise_params_pk

est2 <- est.incidence.by(
  strata = c("catchment"),
  pop_data = xs_data,
  curve_params = curve,
  noise_params = noise,
  antigen_isos = c("HlyE_IgG", "HlyE_IgA"),
  #num_cores = 8 #Allow for parallel processing to decrease run time
)

est2sum <- summary(est2)

autoplot(est2sum, "catchment")

serocalculator documentation built on April 3, 2025, 7:35 p.m.