[R] Anova and tukey-grouping

[arun]

Hi,

I got your data from Nabble.  I meant to do it by dput() because the .csv files may not get through the R-help mailing list.

This is what I got:
dat1<-read.delim("typohne.csv")
 str(dat1)
#'data.frame':    60 obs. of  3 variables:
# $ typ : Factor w/ 5 levels "A","B","C","D",..: 1 2 3 4 5 1 2 3 4 5 ...
# $ abun: int  7 3 14 8 15 5 21 19 9 21 ...
# $ div : int  7 3 11 6 14 5 12 15 8 12 ...

summary(fm1<-aov(abun~typ,data=dat1))
#            Df Sum Sq Mean Sq F value Pr(>F)  
#typ          4    847  211.69   3.654 0.0104 *
#Residuals   55   3186   57.93                 
#---
#Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 
 myresults<-TukeyHSD(fm1,"typ",ordered=TRUE)
 myresults
#  Tukey multiple comparisons of means
#    95% family-wise confidence level
#    factor levels have been ordered

#Fit: aov(formula = abun ~ typ, data = dat1)
#
#$typ
#         diff        lwr      upr     p adj
#B-A  6.500000 -2.2633699 15.26337 0.2382355
#D-A  6.750000 -2.0133699 15.51337 0.2055350
#E-A  9.083333  0.3199635 17.84670 0.0386441
#C-A 11.166667  2.4032968 19.93004 0.0060292
#D-B  0.250000 -8.5133699  9.01337 0.9999902
#E-B  2.583333 -6.1800365 11.34670 0.9197106
#C-B  4.666667 -4.0967032 13.43004 0.5657010
#E-D  2.333333 -6.4300365 11.09670 0.9432637
#C-D  4.416667 -4.3467032 13.18004 0.6167517
#C-E  2.083333 -6.6800365 10.84670 0.9619249
library(agricolae)
 HSD.test(fm1,"typ",group=TRUE)
#Study:
#HSD Test for abun 
#Mean Square Error:  57.92879 
#typ,  means
#      abun   std.err replication
#A  6.25000 0.6976693          12
#B 12.75000 2.4061947          12
#C 17.41667 2.9062585          12
#D 13.00000 2.6198543          12
#E 15.33333 1.5970301          12
#alpha: 0.05 ; Df Error: 55 
#Critical Value of Studentized Range: 3.988545 
#Honestly Significant Difference: 8.76337 
#Means with the same letter are not significantly different.
#Groups, Treatments and means
#a      C      17.4166666666667 
#a      E      15.3333333333333 
#ab      D      13 
#ab      B      12.75 
# b      A      6.25 


I am not sure why you didn't get the results as above.  Check str() to see whether the str() I got matches with yours.

Have a great day!
A.K.

    











----- Original Message -----
From: Landi <ent-artet at gmx.de>
To: r-help at r-project.org
Cc: 
Sent: Friday, September 28, 2012 10:35 AM
Subject: Re: [R] Anova and tukey-grouping

Hello !

Thanks for your advice. I tried it, but the output is the same:
> HSD.test(anova.typabunmit, "typ", group=TRUE)
Name:  typ 
ds.typabunmit$typ 

I don't get the values...!?!?



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