checkIfLostCodonAfterAltOneVariant: Check if the codon lost after alt for one variant.

In utr.annotation: Annotate Variants in the Untranslated Regions

Description

Check if the codon lost after alt for one variant.

Usage

checkIfLostCodonAfterAltOneVariant(variant, colNameAfterAlt, patterns)

Arguments

variant	variant info
colNameAfterAlt	the name of the codon column after alter, type of a string. For example, name of column for the stop codon sequence after alt
patterns	codon patterns, "ATG" for start codon, c("TAG", "TAA", "TGA") for stop codon

Value

A string concatenated TURE or FALSE or NA of all transcripts for that variant. If colNameAfterAlt is NA, return NA

utr.annotation documentation built on Aug. 23, 2021, 9:06 a.m.