removeBackground_-: Setter Method for the 'removeBackground' slot in a...

In patrickCNMartin/ChIPanalyser: ChIPanalyser: Predicting Transcription Factor Binding Sites

Setter Method for the removeBackground slot in a parameterOptions object

Description

Setter Method for the removeBackground slot in a parameterOptions object

Usage

removeBackground(object) <-value

Arguments

object	object is an parameterOptions object
value	value is positive numerical value to be assigned to the removeBackground slot in a parameterOptions object. Default is set a 0.

Details

A numeric value describing a threshold at which Occupancy signals must be removed (Default is set at 0). The removal of Occupancy signals will occur when computing computeOccupancy (see computeOccupancy function)

Value

Returns an parameterOptions object with an updated value for the removeBackground slot

Author(s)

Patrick C. N. Martin <[e-mail]>

References

Zabet NR, Adryan B (2015) Estimating binding properties of transcription factors from genome-wide binding profiles. Nucleic Acids Res., 43, 84–94. Patrick C.N. Martin and Nicolae Radu Zabe (2020) Dissecting the binding mechanisms of transcription factors to DNA using a statistical thermodynamics framework. CSBJ, 18, 3590-3605.

Examples

#Building parameterOptions object
OPP <- parameterOptions()
#Setting new Value for removeBackground
removeBackground(OPP) <- 0.1

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