This quick and simple tutorial demonstrates some of the easy plotting tools in the R core software.
the data are in the "data" directory and come from an old two-colour microarray experiment where spots on the array were printed with different buffers, in different concentrations and with different pins.  Also, both channels Cy5 and Cy3 were spotted identically, and so the fold ratio for all spots should be 1 - this helps us see bias in the data