gseaPlot {phantasus} | R Documentation |
Returns path to an svg file with enrichment plot
gseaPlot( es, rankBy, selectedGenes, width, height, vertical = FALSE, addHeatmap = FALSE, showAnnotation = NULL, annotationColors = NULL, pallete = c("blue", "white", "red") )
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 |
path to an svg file