R: Plot the results of an edge permutation test

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.

Examples


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

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

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