MEDIPS.couplingVector: Calculates the sequence pattern densities at genome wide...
In chavez-lab/MEDIPS: DNA IP-seq data analysis
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
1
MEDIPS.couplingVector(pattern="CG", refObj=NULL)
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
1
2
3
4
5
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.
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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
1 | MEDIPS.couplingVector(pattern="CG", refObj=NULL)
|
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
1 2 3 4 5 | library("MEDIPSData")
library("BSgenome.Hsapiens.UCSC.hg19")
data(hESCs_MeDIP)
CS = MEDIPS.couplingVector(pattern="CG", refObj=hESCs_MeDIP)
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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