enrichItPlot: Adaptive visualisation of enrichIt results

In ncborcherding/escape: Easy single cell analysis platform for enrichment

Adaptive visualisation of enrichIt results

Description

Adaptive visualisation of enrichIt results

Usage

enrichItPlot(
  res,
  plot.type = c("bar", "dot", "cnet"),
  top = 20,
  x.measure = "-log10(padj)",
  color.measure = x.measure,
  show.counts = TRUE,
  palette = "inferno",
  ...
)

Arguments

res	'data.frame' returned by [enrichIt()].
plot.type	'"bar"', '"dot"', or '"cnet"'.
top	Integer. Keep the top *n* terms **per database** (ranked by adjusted *p*). Set to 'Inf' to keep all.
x.measure	A column in 'res' mapped to the *x*-axis (ignored for '"cnet"'). Default '"-log10(padj)"'.
color.measure	Column mapped to color (dot plot only). Default same as 'x.measure'.
show.counts	Logical. Annotate bar plot with the 'Count' (number of genes).
palette	palette Character. Any palette from hcl.pals.
...	Further arguments passed to **ggplot2** geoms (e.g. 'alpha', 'linewidth').

Value

A **patchwork** object (bar / dot) or **ggraph** object (cnet).

Examples

## Not run: 
ranks <- setNames(markers$avg_log2FC, rownames(markers))
gs    <- getGeneSets("Homo sapiens", library = c("H", "C2"))
res   <- enrichIt(ranks, gs)

enrichItPlot(res)               
enrichItPlot(res, "dot", top=10) 
enrichItPlot(res, "cnet", top=5) 

## End(Not run)

ncborcherding/escape documentation built on June 12, 2025, 1 p.m.