I'm not an expert on this, but it's my understanding that this is possible with lattice, but not with ggplot2. See this leanr blog post for an example of a secondary axis plot. Also see Hadley's response to this question.
Here's an example of how to do it in lattice (from Gabor Grothendieck):
library(lattice)
library(grid) # needed for grid.text
# data
Lines.raw <- "Date Fo Co
6/27/2007 57.1 13.9
6/28/2007 57.7 14.3
6/29/2007 57.8 14.3
6/30/2007 57 13.9
7/1/2007 57.1 13.9
7/2/2007 57.2 14.0
7/3/2007 57.3 14.1
7/4/2007 57.6 14.2
7/5/2007 58 14.4
7/6/2007 58.1 14.5
7/7/2007 58.2 14.6
7/8/2007 58.4 14.7
7/9/2007 58.7 14.8
"
# in reality next stmt would be DF <- read.table("myfile.dat", header = TRUE)
DF <- read.table(textConnection(Lines.raw), header = TRUE)
DF$Date <- as.Date(DF$Date, "%m/%d/%Y")
par.settings <- list(
layout.widths = list(left.padding = 10, right.padding = 10),
layout.heights = list(bottom.padding = 10, top.padding = 10)
)
xyplot(Co ~ Date, DF, default.scales = list(y = list(relation = "free")),
ylab = "C", par.settings = par.settings)
trellis.focus("panel", 1, 1, clip.off = TRUE)
pr <- pretty(DF$Fo)
at <- 5/9 * (pr - 32)
panel.axis("right", at = at, lab = pr, outside = TRUE)
grid.text("F", x = 1.1, rot = 90) # right y axis label
trellis.unfocus()