Generate a qq-plot — qqplot • rvat

Plot a qqplot based on the P-values stored in an rvatResult object.

qqplot(
  object,
  title = "",
  label = "label",
  threshold = NULL,
  showThreshold = TRUE,
  labelThreshold = NULL,
  cex = 16,
  lambda1000 = FALSE,
  case = NULL,
  control = NULL
)

Arguments

object: rvatResult object.
title: Optional title.
label: column that significant results should be labeled with.
threshold: Provide alternative fwe threshold (bonferroni is applied by default.)
showThreshold: Show the multiple testing threshold? Defaults to TRUE. The threshold can be specified using the threshold parameter.
labelThreshold: Provide alternative fwe threshold (bonferroni is applied by default.)
cex: Font size, defaults to 16.
lambda1000: Show lambda1000? Defaults to FALSE. If TRUE, the maximum number of cases and controls as specified in the rvatResult object will be used to calculate lambda1000, unless the number of cases and controls are specified using the case and control parameters.
case: Number of cases in association tests.
control: Number of controls in association tests.