count_indel_contexts {MutationalPatterns} | R Documentation

## Count indel contexts

### Description

Count indel contexts

### Usage

    count_indel_contexts(vcf_list)

### Arguments

`vcf_list` | GRanges or GRangesList object containing Indel mutations in which the context was added with get_indel_context.

### Details

Counts the number of indels per COSMIC context from a GRanges or GRangesList object containing Indel mutations. This function applies the count_indel_contexts_gr function to each gr in its input. It then combines the results in a single tibble and returns this.

### Value

A tibble containing the number of indels per COSMIC context per gr.

### See Also

`get_indel_context`

Other Indels: `get_indel_context()`, `plot_compare_indels()`, `plot_indel_contexts()`, `plot_main_indel_contexts()`

### Examples

    ## Get a GRangesList or GRanges object with indel contexts.
    ## See 'indel_get_context' for more info on how to do this.
    grl_indel_context <- readRDS(system.file("states/blood_grl_indel_context.rds",
      package = "MutationalPatterns"
    ))

    # Count the indel contexts
    count_indel_contexts(grl_indel_context)

[Package MutationalPatterns version 3.0.1 Index]