PWMThreshold | R Documentation |
PWMThreshold
slot in a
parameterOptions
object
Accessor method for the PWMThreshold
slot in a
parameterOptions
object
PWMThreshold(object)
object |
|
The computePWMScore
function requires a so-called PWM Threshold.
This threshold represents the Threshold at which PWM Score should be selected.
The PWMThreshold
is a positive numeric value (between 0 and 1.
If set at 0, all sites will be selected. If set at 0.7 (Default value),
then 70 % of PWM Score (and by extension binding sites) will be IGNORED.
The top 30 % will be selected.
Returns the value assinged to the PWMThreshold
slot in a
parameterOptions
object
Patrick C. N. Martin <pm16057@essex.ac.uk>
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.
# Loading data
data(ChIPanalyserData)
#Building data objects
GPP <- parameterOptions(PWMThreshold=0.7)
#Accessing Value for PWMThreshold
PWMThreshold(GPP)
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