R/AllGenerics.R

In YuLab-SMU/ChIPseeker: ChIPseeker for ChIP peak Annotation, Comparison, and Visualization

##' vennpie method generics
##'
##'
##' @docType methods
##' @name vennpie
##' @rdname vennpie-methods
##' @export
setGeneric("vennpie", 
  function(x, r = 0.2, cex = 1.2, ...) 
  standardGeneric("vennpie")
)


##' plotDistToTSS method generics
##'
##'
##' @docType methods
##' @name plotDistToTSS
##' @rdname plotDistToTSS-methods
##' @export
setGeneric("plotDistToTSS", 
  function(x, 
    distanceColumn="distanceToTSS",
    xlab="", ylab="Binding sites (%) (5'->3')",
    title="Distribution of transcription factor-binding loci relative to TSS", 
    ...)
  standardGeneric("plotDistToTSS")
)

##' plotAnnoBar method generics
##'
##'
##' @docType methods
##' @name plotAnnoBar
##' @rdname plotAnnoBar-methods
##' @export
setGeneric("plotAnnoBar", 
  function(x,
    xlab="",
    ylab="Percentage(%)",
    title="Feature Distribution",
    ...)
  standardGeneric("plotAnnoBar")
)


##' plotAnnoPie method generics
##'
##'
##' @docType methods
##' @name plotAnnoPie
##' @rdname plotAnnoPie-methods
##' @export
setGeneric("plotAnnoPie", 
  function(x, 
    ndigit=2,
    cex=0.9,
    col=NA,
    legend.position="rightside",
    pie3D=FALSE,
    radius=0.8,
    ...)
  standardGeneric("plotAnnoPie")
)