alakazam (version 1.3.0)

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,
  ...
)

Value

A ggplot object defining the plot.

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.

See Also

See testEdges for performing the test.

Examples

# \donttest{
# Define example tree set
graphs <- ExampleTrees[1:10]

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

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