lociWidth: Accessor Method for the 'lociWidth' slot in a...
In patrickCNMartin/ChIPanalyser: ChIPanalyser: Predicting Transcription Factor Binding Sites

lociWidth

R Documentation

Accessor Method for the `lociWidth` slot in a `parameterOptions` object

Description

Setter Method for the lociWidth slot in a parameterOptions object

Usage

lociWidth(object)

Arguments

object

object is parameterOptions object

Details

When using the processingChIP function, the provided ChIP scores will be split into bins of a given size. lociWidth determines the Size of that bin. Default is set at 20 000 bp. This means that the ChIP profiles provided will be split into bins of 20 000 bp over the entire profile provided if no loci of interest is provided.

Value

Returns the value assigned to the lociWidth slot in a parameterOptions object.

Author(s)

Patrick C. N. Martin <p.martin@essex.ac.uk>

References

Zabet NR, Adryan B (2015) Estimating binding properties of transcription factors from genome-wide binding profiles. Nucleic Acids Res., 43, 84–94.

Examples

# Loading data
data(ChIPanalyserData)

#Building data objects
GPP <- parameterOptions(lociWidth=20000)
#Accessing new Value for lociWidth
lociWidth(GPP)

patrickCNMartin/ChIPanalyser documentation built on Dec. 5, 2024, 9:32 a.m.