Some sample data:
dfr <- data.frame(
x = rep.int(1:10, 2),
y = runif(20),
g = factor(rep(letters[1:2], each = 10))
)
A simple scat
To contract the scale on the left plot remove the points that lie outside the range. E.g. this will reduce the y scale on the right plot to values between 0 and 0.5:
p <- ggplot(dfr, aes(x, y)) +
geom_point(subset=.(g == "a" | (y > 0 & y <.5))) +
geom_blank(aes(y = ymin)) + geom_blank(aes(y = ymax)) +
facet_wrap(~ g, scales = "free_y")
See also my answer to this question.