I have a problem with NA in a factor variable since ggplot includes them in the plot as if they are another category/level. I would like to drop the missing data. I am sorry
Answers on this related thread: NA's are being plotted in boxplot ggplot2
In brief, instead of the usual:
ggplot(data=data)
use
ggplot(data=na.omit(data[,c("var1","var2",...)]))
where var1, var2 etc are the variables you are plotting.