get_zScoreCutoff: Calculate local background cutoff value

View source: R/09.get_zScoreCutoff.R

get_zScoreCutoffR Documentation

Calculate local background cutoff value

Description

calculate local background z-score cutoff

Usage

get_zScoreCutoff(
  background,
  chr.introns,
  chr.totalCov,
  chr.utr3,
  seqname,
  z = 2
)

Arguments

background

A character(1) vector, indicating how background coverage is defined.

chr.introns

An object of GenomicRanges::GRanges for introns of a give chromosome/scaffold

chr.totalCov

total coverage for a given chromosome/scaffold, an output from get_totalCov() for a given chromosome/scaffold

chr.utr3

An object of GenomicRanges::GRanges, an element of the output of extract_UTR3Anno() for a given chromosome/scaffold

seqname

A character(1), the name of a chromosome/scaffold

z

Z score cutoff value

Value

A named numeric vector containing local background Z-score cutoff values. The names are GRanges's name for 3' UTRs.

Author(s)

Jianhong Ou, Haibo Liu


haibol2016/InPAS documentation built on March 30, 2022, 10:30 a.m.