DpeakMotif-class: Class "DpeakMotif"

In dongjunchung/dpeak: dPeak (Deconvolution of Peaks in ChIP-seq Analysis)

Description

This class represents dPeak data.

Objects from the Class

Objects can be created by calls of the form new("DpeakMotif", ...).

Slots

motif:

Object of class "character", representing a vector of motifs.

locMotif:

Object of class "list", representing list of locations of motifs in candidate regions.

peakChr:

Object of class "character", representing a vector of chromosome of each peak.

peakStart:

Object of class "numeric", representing a vector of start position of each peak.

peakEnd:

Object of class "numeric", representing a vector of end position of each peak.

Methods

dpeakFit

signature(object = "DpeakMotif"): fit the deconvolution model.

print

signature(x = "DpeakMotif"): (not supported yet)

show

signature(object = "DpeakMotif"): provide brief summary of the object.

Author(s)

Dongjun Chung

See Also

dpeakMotif, dpeakFit.

Examples

showClass("DpeakMotif")
## Not run: 
library(BSgenome.Ecoli.NCBI.20080805)
resultMotif <- dpeakMotif( peakfile="examplePeak.txt", refGenome=Ecoli )
resultMotif
fitPET <- dpeakFit( dataPET, resultMotif )

## End(Not run)

dongjunchung/dpeak documentation built on March 1, 2020, 3:44 a.m.