Plotting reference data

plot_refdata Plots the reference data of cancer incidence or mortality rates for the five WHO global regions.

Usage

plot_refdata(
  dat,
  outcome,
  title = "",
  ymax = NULL,
  leg_pos = "none",
  PER = 1e+05,
  x_lab = "age (years)",
  y_lab = "cases per 100,000 PY",
  lsz = 9
)

Arguments

dat

Mortality or Incidence, which contains age- and sex-specific cancer incidence and mortality rates by cancer site and region.

outcome

a character string that specifies the cancer site for which the rates are plotted.

title

a character string that specifies the title of the plot.

ymax

a value that specifies the maximum value for y-axis.

leg_pos

a vector that specifies the legend x-y position ((1,1) for the top-right; default="none" for no-legend).

PER

an integer value for the rate denominator (default=10^5)

x_lab

x-axis label (default="age (years)")

y_lab

y-axis label (default="cases per 100,000 PY")

lsz

legend size (default=9)

Value

a ggplot object

Details

The parameter outcome can be chosen from one of the following character strings for both Mortality and Incidence: "esophagus", "stomach", "colon", "liver", "pancreas", "lung", "breast", "prostate", "bladder" "brainCNS", "thyroid", "all_leukaemia", "all_cancer", "allsolid-NMSC", "allsolid", "leukaemia" (leukaemia excluding CLL).

For MOrtality, "allcause" and "survival" can be additionally chosen.

Examples

 # The following examples use default data provided in CanEpiRisk package
 # for riskmodels (LSS_mortality and LSS_incidence) derived from Life Span Study
 # and baseline mortality and incidence rates for WHO global regions (Mortality and Incidence)

 # Example 1: All solid cancer mortality rates
 plot_refdata( dat=Mortality, outcome="allsolid", title="All solid cancers mortality", leg_pos=c(0.27,0.95), y_lab="deaths per 100,000 PY" )


 # Example 2: Leukaemia incidence rates
 plot_refdata( dat=Incidence, outcome="leukaemia", title="Leukaemia incidence (excluding CLL)", leg_pos=c(0.27,0.95), y_lab="cases per 100,000 PY" )