plotLocation {affy} | R Documentation |
Plots a location on a previously plotted cel image. This can be used to locate the physical location of probes on the array.
plotLocation(x, col="green", pch=22, ...)
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 |
Laurent
## loading data data(affybatch.example) ## image of the celfile image(affybatch.example[1]) ## genenames, arbitrarily pick the 101th n <- geneNames(affybatch.example)[101] ## get the location for the gene n l <- indexProbes(affybatch.example, "both", n)[[1]] ## convert the index to X/Y coordinates xy <- indices2xy(l, abatch=affybatch.example) ## plot plotLocation(xy)