plotEdgeTest {alakazam}R Documentation

Plot the results of an edge permutation test

Description

plotEdgeTest plots the results of an edge permutation test performed with testEdges as either a histogram or cumulative distribution function.

Usage

plotEdgeTest(
  data,
  color = "black",
  main_title = "Edge Test",
  style = c("histogram", "cdf"),
  silent = FALSE,
  ...
)

Arguments

data

EdgeTest object returned by testEdges.

color

color of the histogram or lines.

main_title

string specifying the plot title.

style

type of plot to draw. One of:

  • "histogram": histogram of the edge count distribution with a red dotted line denoting the observed value.

  • "cdf": cumulative distribution function of edge counts with a red dotted line denoting the observed value and a blue dotted line indicating the p-value.

silent

if TRUE do not draw the plot and just return the ggplot2 object; if FALSE draw the plot.

...

additional arguments to pass to ggplot2::theme.

Value

A ggplot object defining the plot.

See Also

See testEdges for performing the test.

Examples


# Define example tree set
graphs <- ExampleTrees[1-10]

# Perform edge test on isotypes
x <- testEdges(graphs, "c_call", nperm=10)

# Plot
plotEdgeTest(x, color="steelblue", style="hist")
plotEdgeTest(x, style="cdf")



[Package alakazam version 1.1.0 Index]