plot_pval_QQ: Plot a QQ-plot of p-values
In FireGutter/geneference: Simulating and analysing genes with LT-FH

Description Usage Arguments Details Value

Creates a QQ-plot of the p-values specified.

plot_pval_QQ(
  dataset,
  P,
  line_color = "black",
  line_size = 1,
  qq_color = "cornflowerblue",
  qq_shape = 20,
  save_plot_path = FALSE,
  plot_filename = "QQ-pvals.png"
)

`dataset`	data imported to R by `load_results()`.
`P`	column containing p-values to be plotted. State in the format dataset$P_value.
`line_color`	color of the identity line.
`line_size`	size of the identity line.
`qq_color`	color of the points showing the quantiles of the p-values.
`qq_shape`	shape of the points showing the quantiles of the p-values.
`save_plot_path`	if `FALSE`, return the function returns a ggplot object. Else a path of the directory to save the plot to.
`plot_filename`	name of the file to be saved, including file extension. Must be either .pdf, .png or .jpeg

Use analysis_association() to obtain p-values for an analysis and import these with load_results().
Assumes p-values are uniformly distributed, and hence uses the uniform distribution for the theoretical quantiles.
vignette("ggplot2-specs", package = "ggplot2") details the usage of aesthetic parameters in ggplot2.

Either returns a ggplot object or saves the plot to save_plot_path and returns NULL.

FireGutter/geneference documentation built on Dec. 17, 2021, 8:27 p.m.