plotMRCATest {alakazam}R Documentation

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.

See Also

See testEdges for performing the test.

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")
plotMRCATest(x, style="cdf")
[Package alakazam version 0.3.0 Index]