> Yes, but my control group is not always in the first colonne. > So, I can have to a matrix like this: > 1 0 0 -1 0 > 0 1 0 -1 0 > 0 0 1 -1 0 > 0 0 0 -1 0 >
see the `base' argument to `contrMat'. Torsten > Laurent Houdusse > Analyste Programmeur > > > > -----Message d'origine----- > De : Torsten Hothorn [mailto:[EMAIL PROTECTED] > Envoyé : vendredi 13 août 2004 14:19 > À : Liaw, Andy; Laurent Houdusse > Cc : '[EMAIL PROTECTED]' > Objet : RE: [R] simtest for Dunnett's test > > > > On Fri, 13 Aug 2004, Liaw, Andy wrote: > > > Before you do any of that, you should realize the fact that simtest > > does _not_ do Dunnett's test: It can use `Dunnett' _contrasts_ to do > > comparisons with a control, but the actual procedure is different. > > You are unlikely to get the same result as other packages that perform > > standard Dunnett's test (or Tukey's, for that matter). > > > > exactly. btw, you don't need to specify the contrast matrix yourself for > this type of question: > > R> summary(simtest(y ~ h)) > > Simultaneous tests: Dunnett contrasts > > Call: > simtest.formula(formula = y ~ h) > > Dunnett contrasts for factor h > > <...> > > Absolute Error Tolerance: 0.001 > > Coefficients: > Estimate t value Std.Err. p raw p Bonf p adj > h11-h1 12.022 -5.272 2.28 0.000 0.000 0.000 > h7-h1 11.556 -5.067 2.28 0.000 0.000 0.000 > h8-h1 10.952 -4.803 2.28 0.000 0.000 0.000 > h2-h1 10.414 -4.567 2.28 0.000 0.000 0.000 > h10-h1 10.247 -4.493 2.28 0.000 0.000 0.000 > h9-h1 9.494 -4.163 2.28 0.000 0.000 0.000 > h3-h1 7.397 -3.244 2.28 0.002 0.006 0.006 > h4-h1 5.384 -2.361 2.28 0.020 0.061 0.053 > h5-h1 5.085 -2.230 2.28 0.028 0.061 0.053 > h6-h1 3.180 -1.394 2.28 0.166 0.166 0.166 > > does exactly the same because the `type' argument defaults to `Dunnett'. > > Best, > > Torsten > > > Andy > > > > > From: Laurent Houdusse > > > > > > Hi! > > > > > > I use simtest fonction of multcomp package to compile a Dunnett's > > > test. I have 10 treatments and one control group, so i create a > > > matrix with: > > > > > > m<-matrix(0,10,11) > > > m[1,1]<--1 > > > m[1,2]<-1 > > > m[2,1]<--1 > > > m[2,3]<-1 > > > m[3,1]<--1 > > > m[3,4]<-1 > > > m[4,1]<--1 > > > m[4,5]<-1 > > > m[5,1]<--1 > > > m[5,6]<-1 > > > m[6,1]<--1 > > > m[6,7]<-1 > > > m[7,1]<--1 > > > m[7,8]<-1 > > > m[8,1]<--1 > > > m[8,9]<-1 > > > m[9,1]<--1 > > > m[9,10]<-1 > > > m[10,1]<--1 > > > m[10,11]<-1 > > > rownames(m)<-c("vehicle+vehicle vs. morphne > > > 60mg/kg+vehicle","vehicle+vehicle vs. Naloxone > > > 30mg/kg+vehicle","vehicle+vehicle vs. Naloxone 30mg/kg+Morphine > > > 60mg/kg","vehicle+vehicle vs. RWJ-69528-000-B > > > 0.1mg/kg+vehicle","vehicle+vehicle vs. RWJ-69528-000-B > > > 1mg/kg+vehicle","vehicle+vehicle vs. RWJ-69528-000-B > > > 0.1mg/kg+morphine 60mg/kg","vehicle+vehicle vs. RWJ-69528-000-B > > > 1mg/kg+morphine 60mg/kg","vehicle+vehicle vs. vehicle+acetaminophen > > > 600mg/kg","vehicle+vehicle vs. RWJ-69528-000-B > > > 0.1mg/kg+acetaminophen 600mg/kg","vehicle+vehicle vs. > > > RWJ-69528-000-B 1mg/kg+acetaminophen > > > 600mg/kg") > > > y<-c(21.5,14.7,16.7,18.8,17.3,15.527,17.551,17.199,15.895,14.3 > > > 88,30,30,30,21 > > > .2,14.6,30.83,30.622,30.465,24.563,31.416,30,30,30,30,19.6,17. > > > 61,30.346,20.8 > > > ,17.045,18.129,17.9,15.4,30,15.9,22.9,31.909,25.633,24.6,20.35 > > > 5,18.807,30,18 > > > .9,16.4,18.2,22.3,21.3,28.571,17.357,16.983,30.40,26.3,24.4,25 > > > ,24.1,14.4,10. > > > 256,13.266,29.6,15.344,18.69,30,30,25.7,30,28.5,30,30.32,30,19 > > > .879,30.716,25 > > > .2,30,30,30,30,30,14.063,28.811,30.396,30.609,30,14.1,30,30,30 > > > ,26.322,30.386 > > > ,28.583,15.77,29.341,30,17.1,30,30,30,30,20.451,30,23.967,30.5 > > > 07,30,30,30,27 > > > .7,30,28.5,22.568,32.379,30.374,28.263) > > > h<-factor(c(rep(1:11, each = 10))) > > > result<-summary(simtest(y ~ h,cmatrix=cbind(0,m))) > > > rownames(result$estimate) > > > result > > > > > > > > > I want to compare my results with the results obtained with > > > SigmaStat Software. In my results, i retrieve a correct q' value > > > with the simtest t value How can i say if P<0.05 like the SigmStat > > > results? Can i use p raw value, p bonf value, p adj value or other > > > to compare directly? Or can i use the Dunnett's tables? > > > > > > Thanks for your help! > > > > > > > > > > > > > > > Laurent Houdusse > > > Analyste Programmeur > > > > > > ______________________________________________ > > > [EMAIL PROTECTED] mailing list > > > https://stat.ethz.ch/mailman/listinfo/r-help > > > PLEASE do read the posting guide! > > > http://www.R-project.org/posting-guide.html > > > > > > > > > > ______________________________________________ > > [EMAIL PROTECTED] mailing list > > https://stat.ethz.ch/mailman/listinfo/r-help > > PLEASE do read the posting guide! > > http://www.R-project.org/posting-guide.html > > > > > > ______________________________________________ > [EMAIL PROTECTED] mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html > > ______________________________________________ [EMAIL PROTECTED] mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html