plot_main_indel_contexts: Plot the main indel contexts

In MutationalPatterns: Comprehensive genome-wide analysis of mutational processes

Description

Plot the main indel contexts

Usage

plot_main_indel_contexts(counts, same_y = FALSE)

Arguments

counts	A tibble containing the number of indels per COSMIC context.
same_y	A boolean describing whether the same y axis should be used for all samples.

Details

Plots the number of indels per main COSMIC context per sample. The contexts are not subdivided into the number of repeats/microhomology length. It takes a tibble with counts as its input. This tibble can be generated by count_indel_contexts Each sample is plotted in a separate facet. The same y axis can be used for all samples or a separate y axis can be used.

Value

A ggplot figure.

See Also

count_indel_contexts, plot_indel_contexts

Other Indels: count_indel_contexts(), get_indel_context(), plot_compare_indels(), plot_indel_contexts()

Examples

## Get The indel counts
## See 'count_indel_contexts()' for more info on how to do this.
indel_counts <- readRDS(system.file("states/blood_indel_counts.rds",
  package = "MutationalPatterns"
))

## Plot contexts
plot_main_indel_contexts(indel_counts)

## Use the same y axis for all samples.
plot_main_indel_contexts(indel_counts, same_y = TRUE)

MutationalPatterns documentation built on Nov. 14, 2020, 2:03 a.m.