[R] Problem applying Chi-square in R and Cochran's Recommendations
Johannes Huesing
johannes at huesing.name
Wed Dec 29 16:22:02 CET 2010
Manoj Aravind <aravindbm at gmail.com> [Wed, Dec 29, 2010 at 03:59:16PM CET]:
> Sir,
>
> I have a problem here while applying chisquare test to the following Data (
> below the subject of this mail) ...when I wanted to test the significance
> using three different free statistical packages, here R, EpiInfo and
> OpenEpi.
>
> *Only OpenEpi accepts the test based on Cochran's Recommendations. *
> R says " chi squared approximation may be incorrect."
> Does it mean the same as what EpInfo saying " Chi square is not valid"
Yes. Take confidence from the fact that arithmetically all three
programs arrive at the same result (anything but surprising).
The recommendations when to trust Chi-Square are similar. R lets
you look at the source though, so if you type
> chisq.test
you get a result containing the following lines:
sr <- rowSums(x)
sc <- colSums(x)
E <- outer(sr, sc, "*")/n
(so E contains the expected values for the cell entries)
and
names(PARAMETER) <- "df"
if (any(E < 5) && is.finite(PARAMETER))
warning("Chi-squared approximation may be incorrect")
so it seems that R is fussier about the quality of the approximation
than EpiInfo:
[...]
> ------------------------------
> Chi Square=43.81Degrees of Freedom=2p-value= <0.0000001 Cochran recommends
> accepting the chi square if: 1. No more than 20% of cells have expected < 5.2.
> No cell has an expected value < 1. In this table: 17% of 6 cells have
> expected values < 5.No cells have expected values < 1. *Using these
> criteria, this chi square can be accepted.* Expected value = row
> total*column total/grand total Rosner, B. Fundamentals of Biostatistics. 5th
> ed. Duxbury Thompson Learning. 2000; p. 395
>
Note that these are recommendations which you are free to heed or ignore.
--
Johannes Hüsing There is something fascinating about science.
One gets such wholesale returns of conjecture
mailto:johannes at huesing.name from such a trifling investment of fact.
http://derwisch.wikidot.com (Mark Twain, "Life on the Mississippi")
More information about the R-help
mailing list