get_snv_mutation_type: Given chromosome, position, reference, and altered allele...

In eyzhao/SignIT: What the Package Does (One Line, Title Case)

Description

Given chromosome, position, reference, and altered allele values, return a vector of SNV mutation types conforming to the standard 96-element mutation types.

Usage

get_snv_mutation_type(chr, pos, ref, alt, genome = NULL)

Arguments

chr	Character vector of chromosomes (must match genome seqlevels)
pos	Integer vector of mutation positions
ref	Character vector of reference alleles (A, C, G, or T)
alt	Character vector of mutated alleles (A, C, G, or T)
genome	BSgenome object from which to derive trinucleotide context sequences

Value

Character vector of mutation types

eyzhao/SignIT documentation built on Dec. 6, 2019, 11:45 a.m.