plotMRCATest - Plot the results of a founder permutation test

Description

plotMRCATest plots the results of a founder permutation test performed with testMRCA.

Usage

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

Arguments

data
MRCATest object returned by testMRCA.
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 annotation count distribution with a red dotted line denoting the observed value.
  • "cdf": cumulative distribution function of annotation 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 MRCA test on isotypes
x <- testMRCA(graphs, "ISOTYPE", nperm=10)




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

4

plotMRCATest(x, style="cdf")

6

See also

See testEdges for performing the test.