plot.Rcpp_Trace function

Plot Trace Object

Plots different traces, specified with the what parameter.

## S3 method for class 'Rcpp_Trace'
plot(
  x,
  what = c("Mutation", "Selection", "MixtureProbability", "Sphi", "Mphi", "Aphi",
    "Sepsilon", "ExpectedPhi", "Expression", "NSEProb", "NSERate", "InitiationCost",
    "PartitionFunction"),
  geneIndex = 1,
  mixture = 1,
  log.10.scale = F,
  ...
)

Arguments

• x: An Rcpp trace object initialized with initializeTraceObject.
• what: A string containing one of the following to graph: Mutation, Selection, Alpha, LambdaPrime, MeanWaitingTime,VarWaitingTime MixtureProbability, Sphi, Mphi, Aphi, Spesilon,ExpectedPhi, Expression.
• geneIndex: When plotting expression, the index of the gene to be plotted.
• mixture: The mixture for which to plot values.
• log.10.scale: A logical value determining if figures should be plotted on the log.10.scale (default=F). Should not be applied to mutation and selection parameters estimated by ROC/FONSE.
• ...: Optional, additional arguments. For this function, may be a logical value determining if the trace is ROC-based or not.

Returns

This function has no return value.