makeRectangleOverlay {GenomeGraphs} | R Documentation

## Create a rectangular overlay

### Description

Construct ractangular overlays.

### Usage

    makeRectangleOverlay(start, end, region = NULL, coords = c("genomic", "absolute"), dp = NULL)

### Arguments

`start` | Start position in coords coordinates
`end` | End position in coords coordinates
`region` | Which tracks to span, or the y (vertical range)
`coords` | Which coordinate system to use, if absolute then the range is from 0,1 and region become the y coordinates
`dp` | The display parameters

### Details

The rectangular overlay can be used to plot overlays in either genomic or absolute coordinates. If coordinates are absolute then the region argument becomes the y arguments.

### Value

An object of class RectangleOverlay

### Examples

    data("exampleData", package = "GenomeGraphs")
    cop <- makeGenericArray(intensity  = cn, probeStart = probestart,
                            dp = DisplayPars(size=3, color = "seagreen", type="dot"))
    gdPlot(list(makeGenomeAxis(), cop), overlays =
           makeRectangleOverlay(start = 180350000, end = 180350000 + 1e5, dp = DisplayPars(alpha = .3)))

[Package GenomeGraphs version 1.4.1 Index]