plot_compare_mbs {MutationalPatterns} | R Documentation

## Compare two mbs mutation profiles

### Description

Plots two mbs mutation profiles and their difference, reports the residual sum of squares (RSS).

### Usage

    plot_compare_mbs(
      profile1,
      profile2,
      profile_names = c("profile 1", "profile 2"),
      profile_ymax = 1,
      diff_ylim = c(-0.5, 0.5)
    )

### Arguments

`profile1` | First mutation profile
`profile2` | Second mutation profile
`profile_names` | Character vector with names of the mutations profiles used for plotting, default = c("profile 1", "profile 2")
`profile_ymax` | Maximum value of y-axis (relative contribution) for profile plotting. This can only be used to increase the y axis. If bars fall outside this limit, the maximum value is automatically increased. default = 1.
`diff_ylim` | Y-axis limits for profile difference plot, default = c(-0.5, 0.5)

### Value

A ggplot2 object

### See Also

`plot_compare_profiles`, `plot_compare_dbs`, `plot_compare_indels`

Other MBS: `count_mbs_contexts()`, `plot_mbs_contexts()`

### Examples

    ## Get the mbs counts
    ## See 'count_mbs_contexts()' for more info on how to do this.
    mbs_counts <- readRDS(system.file("states/blood_mbs_counts.rds",
      package = "MutationalPatterns"
    ))

    ## You could compare regular mutation profiles with eachother.
    plot_compare_mbs(
      mbs_counts[, 1],
      mbs_counts[, 2]
    )

    ## Or change the names of the profiles
    plot_compare_mbs(mbs_counts[, 1],
      mbs_counts[, 2],
      profile_names = c("Original", "Reconstructed")
    )

    ## You can also change the y limits.
    ## This can be done separately for the profiles and the different facets.
    plot_compare_mbs(mbs_counts[, 1],
      mbs_counts[, 2],
      profile_ymax = 0.9,
      diff_ylim = c(-0.8, 0.8)
    )

    ## You could also compare a reconstructed profile.
    ## However, the example data does not contain enough MBS variants to use NMF.
    ## Existing signatures have also not yet been defined.

[Package MutationalPatterns version 3.0.1 Index]