plot_mullerplot: Muller plot
In caravagnalab/lineaGT: lineaGT

plot_mullerplot

R Documentation

Muller plot

Description

Function to visualize the mullerplot for the fitted object.

Usage

plot_mullerplot(
  x,
  which = "frac",
  highlight = c(),
  min_frac = 0,
  estimate_npops = FALSE,
  rm_mixt = FALSE,
  timepoints_to_int = c(),
  mutations = F,
  single_clone = T,
  tree_score = 1,
  legend.pos = "right"
)

Arguments

`x`	a mvnmm object.
`which`	string among `"frac","pop","fitness"` determining whether to plot the coverage normalized in `[0,1]`, as absolute clone abundance, or with each clone colored by the growth rate, computed assuming a exponential growth.
`highlight`	a vector of clusters IDs to highlight in the plot.
`min_frac`	min_frac numeric value in `[0,1]` representing the minimum abundance to highlight a clone.
`timepoints_to_int`	a list to map each `timepoint` value to an integer.
`mutations`	Boolean. If set to `TRUE`, also the clusters of mutations will be visualized.
`single_clone`	Boolean. If `mutations` and `single_clone` are set to `TRUE`, only the clones reported in `highlight` and the respective subclones will be visualised.
`tree_score`	add
`legend.pos`	add