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Muller plot

Source: R/plots_mullerplot.R
plot_mullerplot.Rd

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

Examples

if (FALSE) plot_mullerplot(x, wrap=T)