GetTxRegionCoordinates: Calculate transcript region starting coordinates.

In mevers/RNAModR: Functional Analysis of RNA Modifications

Description

Calculate transcript region starting coordinates along full transcript from a reference transcriptome. See 'Details'.

Usage

GetTxRegionCoordinates(refGenome)

Arguments

refGenome

A character string.

Details

The function loads transcriptome data generated from BuildTx() and stored in a .RData file, and calculates starting coordinates of the transcript regions 5'UTR, CDS, 3'UTR along the full transcript. There should not be any need to call this function directly. The function returns a list with the following elements:

1. start_region: A data.frame of transcript region start coordinates

2. gr.start: A GRanges object of start codon transcript coordinates

3. gr.stop: A GRanges object of stop codon transcript coordinates

Value

A list. See 'Details'.

Author(s)

Maurits Evers, [e-mail]

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