plot_bootstrapped_contribution {MutationalPatterns} | R Documentation

## Plot the bootstrapped signature contributions

### Description

Plot the signature contributions retrieved with 'fit_to_signatures_bootstrapped'. The function can plot both the absolute or the relative signature contribution. The graph can be plotted as either a jitter plot or as a barplot.

### Usage

    plot_bootstrapped_contribution(
      contri_boots,
      mode = c("absolute", "relative"),
      plot_type = c("jitter", "barplot", "dotplot")
    )

### Arguments

`contri_boots` | matrix showing signature contributions across bootstrap iterations.
`mode` | Either "absolute" for absolute number of mutations, or "relative" for relative contribution, default = "absolute"
`plot_type` | Either "jitter" for a jitter plot, "barplot" for a barplot, or "dotplot" for a dotplot

### Value

A ggplot2 graph

### Examples

    ## Get the bootstrapped signature contributions
    ## See 'count_indel_contexts()' for more info on how to do this.
    contri_boots <- readRDS(system.file("states/bootstrapped_snv_refit.rds",
      package = "MutationalPatterns"
    ))

    ## Plot bootstrapped contribution
    plot_bootstrapped_contribution(contri_boots)

    ## Plot bootstrapped contribution with relative contributions
    plot_bootstrapped_contribution(contri_boots, mode = "relative")

    ## Plot bootstrapped contribution with a barplot
    plot_bootstrapped_contribution(contri_boots, plot_type = "barplot")

    ## Plot bootstrapped contribution with a dotplot
    plot_bootstrapped_contribution(contri_boots, plot_type = "dotplot", mode = "absolute")

[Package MutationalPatterns version 3.0.1 Index]