Populate Sequence context

This function populates the trinucleotide context for each mutation in the mutation data.

Usage

populate_sequence_context(mutation_granges, BS_genome, n = 1)

Arguments

mutation_granges

A GRanges object containing mutation data.

BS_genome

The name of the Bioconductor BSgenome package to use for retrieving the reference genome sequence.

n

An integer value indicating the number of base pairs to include on either side of the mutation for context. Default is 1 (trinucleotide context including the mutation).

Value

A GRanges object with an additional column for the trinucleotide context.