plotr
I'm trying to specify the lower and upper range for the x- and y-axis for a log-scale plot. I thought I could use xlim and ylim, but I receive a warning message and no plot:
1: In plot.window(…) :
nonfinite axis limits [GScale(-inf,3.30103,1, .); log=1]
Here is my code.
plot(FAS_set$ConcCalc~ZCS_set$ConcCalc,pch=21,bg="black",log="xy",xlim=c(0,2000),ylim=c(0,100000))
Any help would be appreciated.
Cheers.
Others have already pointed out that actual boxplots are not going to work well. However, there is a very efficient way to visually scan all of your variables: Simply plot their distributions as an image (i.e. heatmap). Here is an example showing how it is really quite easy to get the gist of 400 variables and 80,000 individual data points!
# Simulate some data
set.seed(12345)
n.var = 400
n.obs = 200
data = matrix(rnorm(n.var*n.obs), nrow=n.obs)
# Summarize data
breaks = seq(min(data), max(data), length.out=51)
histdata = apply(data, 2, function(x) hist(x, plot=F, breaks=breaks)$counts)
# Plot
dev.new(width=4, height=4)
image(1:n.var, breaks, t(histdata), xlab='Variable Index', ylab='Histogram Bin')
This will be most useful if all your variables are comparable, or are at least sorted into rational groups. hclust and the heatmap functions can also be helpful here for more complicated displays. Good luck!
Just add ylim=c(0,300)) to your code
Best Answer
On a log-scale, 0 is minus infinity. Change your lower limit to 0.000001 or something and you'll be fine, eg this works: