PositionWeightMatrix {ChIPanalyser} | R Documentation |
PWM
slot in a
genomicProfiles
object
Accessor Method for the PWM
slot in a
genomicProfiles
object
PositionWeightMatrix(object)
object |
|
After creating a genomicProfiles
object,
it is possible to access the Position Weight Matrix stored in this slot.
This slot should always contain something. This slot is either supplied by
user or directly computed from a Position Frequency Matrix when supplied.
Returns a matrix in the form of a Position Weight Matrix
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 genomicProfiles object GPP<-genomicProfiles(PFM=PFM,PFMFormat="raw") # Accessing Slot PositionWeightMatrix(GPP)