David, Thanks for your reply--I appreciate your thoughts. I will look at prop.test.
The reason I chose fisher.test over chisq.test is that fisher.test is more appropriate when observed counts are not numerous--empty cells and cells with counts < 5 are less a problem. Expected values are needed to test a null hypothesis against observed counts, but if total observed counts are 20 for 3 categories, then a null hypothesis of a random effect would use expected values = 6.67 in each of the 3 categories (20/3). Yes, fisher.test is for count data and so is chisq.test, but chisq.test allows 6.67 to be input as expected values in each of 3 categories, while fisher.test does not seem to allow this? I don't think it is inherent in Fisher's exact test itself that expected values must be integers, but not sure. -- View this message in context: http://r.789695.n4.nabble.com/fisher-test-can-I-use-non-integer-expected-values-tp4681976p4681989.html Sent from the R help mailing list archive at Nabble.com. ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
