motifGrob {motifStack} | R Documentation

## Motif Grob

### Description

This function create a motif grob.

### Usage

    motifGrob(pfm, x = unit(0.5, "npc"), y = unit(0.5, "npc"),
                          width = unit(1, "npc"), height = unit(1, "npc"),
                          angle = 0, ic.scale=TRUE, default.units = "native", name=NULL,
                          gp = gpar(fontfamily = "Helvetica-Bold",
                                    fontface="bold"))

### Arguments

`pfm` | an object of pfm
`x` | A numeric vector or unit object specifying x-values.
`y` | A numeric vector or unit object specifying y-values.
`width` | A numeric vector or unit object specifying width.
`height` | A numeric vector or unit object specifying height.
`angle` | A numeric value indicating the angle of rotation of the motif. Positive values indicate the amount of rotation, in degrees, anticlockwise from the positive x-axis.
`ic.scale` | logical If TRUE, the height of each column is proportional to its information content. Otherwise, all columns have the same height.
`default.units` | A string indicating the default units to use if x, y, width, or height are only given as numeric vectors.
`name` | A character value to uniquely identify the motifGrob once it has been pushed onto the grob tree.
`gp` | A gpar object, typically the output from a call to the function gpar. The list will be used as parameter of plotMotifLogoA.

### Value

An gTree object.

### Author(s)

Jianhong Ou

### Examples

    pcm<-matrix(runif(40,0,100),nrow=4,ncol=10)
    pfm<-pcm2pfm(pcm)
    rownames(pfm)<-c("A","C","G","T")
    motif <- new("pfm", mat=pfm, name="bin_SOLEXA")
    motifGrob(motif)

[Package motifStack version 1.31.2 Index]