GetEEJunct: Get exon-exon boundary sites from reference transcriptome

In mevers/RNAModR: Functional Analysis of RNA Modifications

Description

Get exon-exon boundary sites from transcriptome. See 'Details'.

Usage

GetEEJunct(refGenome = "hg38", filter = c("CDS", "5'UTR"))

Arguments

refGenome	A character string; specifies a specific reference genome assembly version based on which the matching transcriptome is loaded; default is "hg38".
filter	A character vector; only consider transcript sections specified in filter; default is c("CDS", "5'UTR").

Details

The function extracts exon-exon boundary sites (EEBS) from a reference trancriptome specified by refGenome, and returns a GRanges object. Boundary sites are defined as the location of those exonic single nucleotides that are closest upstream to the intronic donor site.

Value

A GRanges object. See 'Details'.

Author(s)

Maurits Evers, [e-mail]

mevers/RNAModR documentation built on Nov. 17, 2019, 9:11 a.m.