Function to visualize the input and reconstructed mutation counts.

Usage

plot_data(
  x,
  types = get_types(x),
  samples = get_samples(x),
  clusters = get_cluster_labels(x),
  reconstructed = TRUE,
  color_by_sigs = FALSE,
  plot_by_sample = FALSE
)

Arguments

x: bascule object.
types: List of variant types to visualize.
samples: List of samples to visualize.
clusters: List of clusters to visualize.
reconstructed: Logical. If `TRUE`, the reconstructed counts, i.e., computed as alpha x beta, will be visualized.
color_by_sigs: Logical. If `TRUE`, each context will report the number of mutations split by signature.
plot_by_sample: Logical. If `TRUE`, the function will return a list of ggplot objects with the counts for each sample.

Value

one or a list of ggplot objects.