CanonicalizeID115: Determine the mutation types of insertions and deletions.

In steverozen/ICAMSxtra: ICAMSxtra

Description

Determine the mutation types of insertions and deletions.

Usage

CanonicalizeID115(context, ref, alt, pos, strand)

Arguments

context	A vector of ample surrounding sequence on each side the variants
ref	Vector of reference alleles
alt	Vector of alternative alleles
pos	Vector of the positions of the insertions and deletions in context.
strand	NULL by default. But when called by StrandBiasGetPlottablesID115, strand is either + or -. The return value will include :trans or :nontrans indicating whether the deletion occurred on the transcribed or non-transcribed strand.

Value

A vector of strings that are the canonical representations of the given insertions and deletions.

steverozen/ICAMSxtra documentation built on Feb. 9, 2022, 7:01 a.m.