You have confused 'Anova', 'aov' and 'anova'. R has aov() and anova(), package car (called from Rcmdr) has Anova(). They are not the same things: Anova computes (so-called, by SAS) 'type-II or type-III analysis-of-variance tables', something deliberately not available in base R.

See http://www.stats.ox.ac.uk/pub/MASS3/Exegeses.pdf for some background and why many distinguished statisticians regard your example of the use of Anova() as meaningless.

In any case, lm (in your subject line) is innocent ... it does not compute any form of ANOVA table.

On Tue, 31 Aug 2010, Iasonas Lamprianou wrote:

Dear all

I have found that the two "equivalent" commands do not produce the same results.
   1. (I wrote this command by hand, this is what I would do usually)
   >summary(aov(eduyrs ~ cntry * edf, data=ESS1))
                 Df Sum Sq Mean Sq  F value    Pr(>F)
   cntry          1    257  256.65  21.2251 4.243e-06 ***
   edf            4  11010 2752.42 227.6296 < 2.2e-16 ***
   cntry:edf      4     24    6.03   0.4987    0.7367
   Residuals   3205  38754   12.09
   ---
   Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1

2. (I run this from Rcmdr, this is what my students would normally do)
   >AnovaModel.2 <- (lm(eduyrs ~ cntry*edf, data=ESS1))
   > Anova(AnovaModel.2)
   Anova Table (Type II tests)
   Response: eduyrs
             Sum Sq   Df  F value  Pr(>F)
   cntry         38    1   3.1158 0.07763 .
   edf        11010    4 227.6296 < 2e-16 ***
   cntry:edf     24    4   0.4987 0.73672
   Residuals  38754 3205
   ---
   Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1

   Unfortunately, the results are different. Could anyone, please, explain why?


Dr. Iasonas Lamprianou


Assistant Professor (Educational Research and Evaluation)
Department of Education Sciences
European University-Cyprus
P.O. Box 22006
1516 Nicosia
Cyprus
Tel.: +357-22-713178
Fax: +357-22-590539


Honorary Research Fellow
Department of Education
The University of Manchester
Oxford Road, Manchester M13 9PL, UK
Tel. 0044  161 275 3485
iasonas.lampria...@manchester.ac.uk

--
Brian D. Ripley,                  rip...@stats.ox.ac.uk
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  +44 1865 272861 (self)
1 South Parks Road,                     +44 1865 272866 (PA)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595

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