lambdaPWM: Accessor Method for the 'lambdaPWM' slot in a...
In patrickCNMartin/ChIPanalyser: ChIPanalyser: Predicting Transcription Factor Binding Sites
lambdaPWM R Documentation
Accessor Method for the lambdaPWM slot in a
parameterOptions object
Description
Accessor Method for the lambdaPWM slot in a
parameterOptions object
Usage
lambdaPWM(object)
Arguments
object
object is parameterOptions object
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)
patrickCNMartin/ChIPanalyser documentation built on Dec. 5, 2024, 9:32 a.m.
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| lambdaPWM | R Documentation |
Accessor Method for the lambdaPWM slot in a
parameterOptions object
Description
Accessor Method for the lambdaPWM slot in a
parameterOptions object
Usage
lambdaPWM(object)
Arguments
object |
|
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)
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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