lambdaPWM_: Setter Method for the 'lambdaPWM' slot in a...
In patrickCNMartin/ChIPanalyser: ChIPanalyser: Predicting Transcription Factor Binding Sites

lambdaPWM<-

R Documentation

Setter Method for the `lambdaPWM` slot in a `parameterOptions` object

Description

Setter Method for the lambdaPWM slot in a parameterOptions object

Usage

lambdaPWM(object)<-value

Arguments

`object`	`object` is `parameterOptions` object
`value`	`value` is the numeric value to be assigned to the lambdaPWM slot. Default set at 1.

Details

The model underlying ChIPanalyser internally infers two paramters: number of bound molecules and lambda. Lambda represents a scaling factor for the Position weight matrix (PWM). This can be described as how well does a TF discriminate between high affinity and very high affinity sites.

Value

Returns the value assigned to the lambdaPWM 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(lambdaPWM=1)
#Setting new Value for lambdaPWM
lambdaPWM(GPP) <- 2

patrickCNMartin/ChIPanalyser documentation built on Nov. 24, 2022, 12:02 a.m.