observedAndExpected: Calculate CG ratio and observed:expected ratio for CpG...

In diannamcallister/MethylExpress: Visual investigation of physical characteristics of methylation of DNA

Description

A helper function that returns the ratio of CG nucleotides to the amount of all nucleotides, and the ratio of observed:expected CpG Islands

Usage

observedAndExpected(numC, numG, numCpG, lenNuc)

Arguments

numC	The number of cytosines in a DNA strand
numG	The number of guanines in a DNA strand
numCpG	The number of cytosines followed by a guanine in a DNA strand
lenNuc	The number of nucleotides in a DNA strand

Details

This function is an internal function and therefore cannot be used directly when installing this package - it is instead a helper function for findCpGIslands

Value

A dataframe with the CG ratio and observed:expected ratio of CpG Islands

• CGRatio - A value for the CG ratio in a DNA strand

• OERatio - A value for the observed:expected CpG Island ratio

diannamcallister/MethylExpress documentation built on Dec. 31, 2020, 11:19 p.m.