gseaPlot: Returns path to an svg file with enrichment plot

In ctlab/phantasus: Visual and interactive gene expression analysis

Returns path to an svg file with enrichment plot

Description

Returns path to an svg file with enrichment plot

Usage

gseaPlot(
  es,
  rankBy,
  selectedGenes,
  width,
  height,
  vertical = FALSE,
  addHeatmap = FALSE,
  showAnnotation = NULL,
  annotationColors = NULL,
  pallete = c("blue", "white", "red")
)

Arguments

es	ExpressionSet object.
rankBy	name of the numeric column used for gene ranking
selectedGenes	indexes of selected genes (starting from one, in the order of fData)
width	width of the image (in inches)
height	height of the image (in inches)
vertical	whether to use vertical orientation (default: FALSE)
addHeatmap	whether to add an expression heatmap, sorted by rankBy (default: FALSE)
showAnnotation	a name of column annotation to add to the heatmap, default: NULL (no annotation)
annotationColors	a list of colors to use in annotation
pallete	a vector of colors to draw heatmap

Value

path to an svg file

ctlab/phantasus documentation built on Oct. 11, 2024, 4:11 p.m.