plot_correlation_bootstrap: Plots the correlation between bootstrapped signature...

In CuppenResearch/MutationalPatterns: Comprehensive genome-wide analysis of mutational processes

Plots the correlation between bootstrapped signature contributions

Description

This function plots the pearson correlation between signatures. This can be done per sample or for all samples together. It returns a list of the created figures.

Usage

plot_correlation_bootstrap(contri_boots, per_sample = TRUE)

Arguments

contri_boots	A dataframe with bootstrapped signature contributions.
per_sample	Whether or not a plot should be made per sample. Default: TRUE.

Value

A list of ggplot2 objects if run per sample. Else it returns a single ggplot2 object.

Examples

## Get a dataframe with bootstrapped signature contributions.
## See 'fit_to_signatures_bootstrapped()' for how to do this.
contri_boots <- readRDS(system.file("states/bootstrapped_snv_refit.rds",
  package = "MutationalPatterns"
))

## Plot the correlations between signatures per sample
fig_l <- plot_correlation_bootstrap(contri_boots)

## Look at the figure of the first sample.
fig_l[[1]]

## You can also look at the correlation for all samples combined
plot_correlation_bootstrap(contri_boots, per_sample = FALSE)

CuppenResearch/MutationalPatterns documentation built on Nov. 23, 2022, 4:13 a.m.