strandRule {ChIPanalyser} | R Documentation |
strandRule
slot in a
genomicProfileParameters
object
Accessor Method for the strandRule
slot in a
genomicProfileParameters
object
strandRule(object)
object |
|
When computing the PWM Scores and if whichstrand
is set to "+-", strandRule
will determine how to handle both strands
( one of three options : "mean", "max", "sum"). If set to "mean",
the average PWM Score of both strand will be computed. If set to "max",
the highest PWM score between each strand will be selected and finally "sum"
will sum both score together. Default set at "max"
Returns the value assigned to strandRule
slot (one of three options :
"mean", "max", "sum") in a genomicProfileParameters
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.
# Loading data data(ChIPanalyserData) #Loading PFM files PFM <- file.path(system.file("extdata",package="ChIPanalyser"),"BCDSlx.pfm") #Building data objects GPP <- genomicProfileParameters(PFM=PFM, strandRule="max") #Accesssing Value for strandRule strandRule(GPP)