plotLocation {affy} | R Documentation

## Plot a location on a cel image

### Description

Plots a location on a previously plotted cel image. This can be used to locate the physical location of probes on the array.

### Usage

    plotLocation(x, col="green", pch=22, ...)

### Arguments

`x` | a ‘location’. It can be obtained by the method of `AffyBatch` `indexProbes`, or made elsewhere (basically a location is nrows and two columns array. The first column corresponds to the x positions and the second columns corresponds to the y positions of n elements to locate).
`col` | colors for the plot.
`pch` | plotting type (see function `plot`).
`...` | other parameters passed to the function `points`.

### Author(s)

Laurent

### See Also

`AffyBatch`

### Examples

    if (require(affydata)) {
      data(Dilution)

      ## image of the celfile
      image(Dilution[, 1])

      ## genenames, arbitrarily pick the 101th
      n <- geneNames(Dilution)[101]

      ## get the location for the gene n
      l <- indexProbes(Dilution, "both", n)[[1]]
      ## convert the index to X/Y coordinates
      xy <- indices2xy(l, abatch=Dilution)

      ## plot
      plotLocation(xy)
    }

[Package affy version 1.72.0 Index]