plotMRCATest: Plot the results of a founder permutation test

In alakazam: Immunoglobulin Clonal Lineage and Diversity Analysis

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, "c_call", nperm=10)

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

alakazam documentation built on Sept. 30, 2023, 9:07 a.m.