getTranscriptIdsForUTRVariants: Find the ensembl_transcript_id for utr variants genes, or cds

In utr.annotation: Annotate Variants in the Untranslated Regions

Description

getTranscriptIdsForUTRVariants find transcripts if a variant fall in their specified region and return all transcripts id for each variant in the variant table

Usage

getTranscriptIdsForUTRVariants(variantsTable, transcriptRegions, checkRegion)

Arguments

variantsTable	variants table
transcriptRegions	transcripts structure table from Ensembl
checkRegion	check if a transcript within a region: utr5 or utr3 or cds

Value

A list containing ensembl_transcript_id of each variant which its mutation Pos is within those transcripts checkRegion.

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