backgroundCorrection: Correct ratios for background

Description Usage Arguments Details Value Examples

View source: R/backgroundCorrection.R

Description

Correct ratios of read counts per sliding window for background.

Usage

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backgroundCorrection(ratios, degree = 3, ...)

Arguments

ratios

A vector of numeric. It is log2-transformed ratios, CPMRatios or OddRatios of counts for each window.

degree

Degree of polynomial. default 3.

...

parameters could be passed to baseline.modpolyfit.

Details

This function implements the backgound correction methods of algorithm for polynomial fitting. See details via baseline.modpolyfit. This function expects the trendency of decreasing of the ratios from 5' end to 3' end.

Value

A vector of numeric. It is the background corrected log2-transformed ratios, CPMRatios or OddRatios.

Examples

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x <- runif(200)
background <- rep(c(20:1)/100, each=10)
backgroundCorrection(x)

LihuaJulieZhu/NADfinder documentation built on May 17, 2019, 6:21 p.m.