count_dbs_contexts: Count DBS contexts
In MutationalPatterns: Comprehensive genome-wide analysis of mutational processes

Description Usage Arguments Details Value See Also Examples

Count DBS contexts

1	count_dbs_contexts(vcf_list)

vcf_list

GRanges or GRangesList object containing DBS mutations in which the context was added with get_dbs_context.

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

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

get_dbs_context

Other DBS: get_dbs_context(), plot_compare_dbs(), plot_dbs_contexts(), plot_main_dbs_contexts()

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

# Count the dbs contexts
count_dbs_contexts(grl_dbs_context)