Density plot

Generate a density plot for a rvatResult highlighting the Z-scores of the selected gene set

densityPlot(
  object,
  geneSet,
  geneSetList,
  showMeans = FALSE,
  INT = FALSE,
  Zcutoffs = NULL,
  title = ""
)

Arguments

object

a rvbResult object

geneSet

string with the name of the gene set of interest

geneSetList

list with the available gene sets

showMeans

Show mean Z-score for genes in and outside the gene set. Defaults to FALSE.

INT

Apply inverse normal transformation to Z-scores? Defaults to FALSE.

Zcutoffs

A vector (length=2, minimum and maximum) of cutoffs to apply to the Z-scores. Z scores below/above these cutoffs will be set equal to the cutoff.

title

the title of the plot