odd_ratio: Calculate log odd ratio of the given samples (healthy/tumor)

In MethTargetedNGS: Perform Methylation Analysis on Next Generation Sequencing Data

Description

Log Odd ratio defines the hypomethylation and hypermethylation of a sample in comparison to the other sample.

Usage

odd_ratio(SampA, SampB, plot = TRUE, main = "Log Odd Ratio")

Arguments

SampA	Matrix from methAlign. Also matrix where columns represents Cytosine of CpG sites and rows represents sequences.
SampB	Matrix from methAlign. Also matrix where columns represents Cytosine of CpG sites and rows represents sequences.
plot	Boolean. TRUE if need a plot after calculation. Default TRUE
main	Title of the plot

Value

Vector containing log odd ratios.

Author(s)

Muhammad Ahmer Jamil, Prof. Holger Frohlich, Priv.-Doz. Dr. Osman El-Maarri

Maintainer: Muhammad Ahmer Jamil [e-mail]

See Also

methAlign

Examples

healthy = system.file("extdata", "Healthy.fasta", package = "MethTargetedNGS")
tumor = system.file("extdata", "Tumor.fasta", package = "MethTargetedNGS")
reference =  system.file("extdata", "Reference.fasta", package = "MethTargetedNGS")

healthy = methAlign(healthy,reference)
tumor = methAlign(tumor,reference)
odd_ratio(healthy,tumor)

MethTargetedNGS documentation built on Nov. 8, 2020, 8:10 p.m.