backgroundCorrection: Correct ratios for background

In jianhong/NADfinder: Call wide peaks for sequencing data

Correct ratios for background

Description

Correct ratios of read counts per sliding window for background.

Usage

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

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

jianhong/NADfinder documentation built on Nov. 2, 2024, 12:09 a.m.