REF3UTR {APAlyzer}R Documentation

REF3UTR, build reference regions for 3'UTR PASs

Description

Build 3'UTR PAS Reference for distal and proximal PAS.

Usage

    REF3UTR(refUTR)

Arguments

refUTR

a dataframe containing 6 colmuns for 3'UTR PASs: 'gene_symbol', 'Chrom', 'Strand', 'Proximal', 'Distal', 'cdsend'

Value

The function REF3UTR() returns a genomic ranges of aUTR(pPAS to dPAS) and cUTR(cdsend to pPAS) regions for each gene

Author(s)

Ruijia Wang

Examples

## build Reference ranges for 3'UTR PASs in human
    extpath = system.file("extdata", "mm9_REF.RData", package="APAlyzer")
    load(extpath)
    refUTRraw=refUTRraw[which(refUTRraw$Chrom=='chr19'),]
    UTRdbraw=REF3UTR(refUTRraw)
[Package APAlyzer version 1.0.0 Index]