MEDIPS.couplingVector: Calculates the sequence pattern densities at genome wide...

Description Usage Arguments Value Author(s) Examples

View source: R/MEDIPS.couplingVector.R

Description

The function calculates the local densities of a defined sequence pattern (e.g. CpGs) and returns a COUPLING SET object which is necessary for normalizing MeDIP data.

Usage

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Arguments

pattern

defines the sequence pattern, e.g. CG for CpGs.

refObj

a MEDIPS Set or MEDIPS ROI Set that serves as reference for the genome and window parameters.

Value

A COUPLING SET object.

Author(s)

Lukas Chavez

Examples

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library("MEDIPSData")
library("BSgenome.Hsapiens.UCSC.hg19")

data(hESCs_MeDIP)
CS = MEDIPS.couplingVector(pattern="CG", refObj=hESCs_MeDIP)

chavez-lab/MEDIPS documentation built on Feb. 17, 2021, 3:24 a.m.