plot_profile_region {MutationalPatterns} | R Documentation

## Plot 96 trinucleotide profile per subgroup

### Description

Plot relative contribution of 96 trinucleotides per subgroup. This can be genomic regions but could also be other subsets. The function uses a matrix generated by 'lengthen_mut_matrix()' as its input.

### Usage

    plot_profile_region(
      mut_matrix,
      mode = c("relative_sample", "relative_sample_feature", "absolute"),
      colors = NULL,
      ymax = 0.2,
      condensed = FALSE
    )

### Arguments

`mut_matrix` | Mutation matrix
`mode` | 'relative_sample', 'relative_sample_feature' or 'absolute' When 'relative_sample', the number of variants will be shown divided by the total number of variants in that sample. When 'relative_sample_feature', the number of variants will be shown divided by the total number of variants in that sample. and genomic region.
`colors` | 6 value color vector
`ymax` | Y axis maximum value, default = 0.2
`condensed` | More condensed plotting format. Default = FALSE.

### Value

96 trinucleotide profile plot per region

### See Also

`mut_matrix`

Other genomic_regions: `bin_mutation_density()`, `lengthen_mut_matrix()`, `plot_spectrum_region()`, `split_muts_region()`

### Examples

    ## See the 'lengthen_mut_matrix()' example for how we obtained the
    ## mutation matrix information:
    mut_mat_long <- readRDS(system.file("states/mut_mat_longregions.rds",
      package = "MutationalPatterns"
    ))

    ## Plot the 96-profile of three samples
    plot_profile_region(mut_mat_long[, c(1, 4, 7)])

[Package MutationalPatterns version 3.0.1 Index]