plotExchangeSpectra_indel {YAPSA} | R Documentation

## Plot the spectra of nucleotide exchanges of INDELs

### Description

Plots the spectra of nucelotides in their triplet contexts. If several columns are present in the input data frame, the spectra are ploted for every column seperatly. The function is only suitable for a INDEL spectra and for SNV representation the funtion `plotExchangeSpectra` should be used.

### Usage

    plotExchangeSpectra_indel(
      in_catalogue_df,
      in_colour_vector = NULL,
      in_show_indel = FALSE,
      in_show_axis_title = FALSE,
      in_scales = "free_x",
      in_refLine = NULL,
      in_refAlpha = 0.5,
      in_background = NULL
    )

### Arguments

`in_catalogue_df` | Numerical data frame encoding the exchange spectra to be displayed, either a mutational catalogue `V` or a signatures matrix `W`
`in_colour_vector` | Specifies the colours of the INDELs if non-null
`in_show_indel` | Whether or not to show the INDEL names on the x-axis
`in_show_axis_title` | Whether or not to show the name of the y-axis
`in_scales` | Argument passed on to `facet_grid`
`in_refLine` | If non-null, value on the y-axis at which a horizontal line is to be drawn
`in_refAlpha` | Transparency of the horizontal line if it is to be drawn
`in_background` | Option to provide a background theme, e.g. `theme_grey`

### Value

The generated barplot - a ggplot2 plot

### Examples

    data(sigs_pcawg)
    plotExchangeSpectra_indel(PCAWG_SP_ID_sigs_df[,c(6,8)])

[Package YAPSA version 1.20.1 Index]