lambdaPWM_: Setter Method for the 'lambdaPWM' slot in a...
In patrickCNMartin/ChIPanalyserDev: ChIPanalyser: Predicting Transcription Factor Binding Sites
Description
Usage
Arguments
Details
Value
Author(s)
References
Examples
Description
Setter Method for the lambdaPWM slot in a
parameterOptions object
Usage
1
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
1
2
3
4
5
6
7
# Loading data
data(ChIPanalyserData)
#Building data objects
GPP <- parameterOptions(lambdaPWM=1)
#Setting new Value for lambdaPWM
lambdaPWM(GPP) <- 2
patrickCNMartin/ChIPanalyserDev documentation built on Nov. 14, 2019, 4:39 p.m.
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Description Usage Arguments Details Value Author(s) References Examples
Description
Setter Method for the lambdaPWM slot in a
parameterOptions object
Usage
1 | lambdaPWM(object)<-value
|
Arguments
object |
|
value |
|
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
1 2 3 4 5 6 7 | # Loading data
data(ChIPanalyserData)
#Building data objects
GPP <- parameterOptions(lambdaPWM=1)
#Setting new Value for lambdaPWM
lambdaPWM(GPP) <- 2
|
R Package Documentation
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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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