mut_type {MutationalPatterns} | R Documentation

## Retrieve base substitution types from a VCF object

### Description

A function to extract the base substitutions from a vcf and translate to the 6 common base substitution types.

### Usage

    mut_type(vcf)

### Arguments

`vcf` | A CollapsedVCF object

### Value

Character vector with base substitution types

### See Also

`read_vcfs_as_granges`

### Examples

    ## See the 'read_vcfs_as_granges()' example for how we obtained the
    ## following data:
    vcfs <- readRDS(system.file("states/read_vcfs_as_granges_output.rds",
                    package="MutationalPatterns"))

    mut_type(vcfs[[1]])

[Package MutationalPatterns version 1.4.3 Index]