plotCloneSummary function

Plot clonal clustering summary

plotCloneSummary plots the results in a ScoperClones object returned by spectralClones, identicalClones or hierarchicalClones. Includes the minimum inter (between) and maximum intra (within) clonal distances and the calculated efective threshold.

plotCloneSummary(
  data,
  xmin = NULL,
  xmax = NULL,
  breaks = NULL,
  binwidth = NULL,
  title = NULL,
  size = 0.75,
  silent = FALSE,
  ...
)

Arguments

• data: ScoperClones object output by the spectralClones , identicalClones or hierarchicalClones .
• xmin: minimum limit for plotting the x-axis. If NULL the limit will be set automatically.
• xmax: maximum limit for plotting the x-axis. If NULL the limit will be set automatically.
• breaks: number of breaks to show on the x-axis. If NULL the breaks will be set automatically.
• binwidth: binwidth for the histogram. If NULL the binwidth will be set automatically.
• title: string defining the plot title.
• size: numeric value for lines in the plot.
• 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.

Returns

A ggplot object defining the plot.

Examples

# Find clones
results <- hierarchicalClones(ExampleDb, threshold=0.15)

# Plot clonal summaries
plot(results, binwidth=0.02)

See Also

See ScoperClones for the the input object definition. See spectralClones , identicalClones and hierarchicalClones

for generating the input object.