The command summary(manova(..)) will perform a parametric manova. However, for the datafile you sent, that operation will not be possible because the number of variables relative to sample size (note, you posted a similar issue about a month ago to Morphmet). The alternative is to use permutation-based evaluation of group differences. Permutation-based manova can be performed in numerous R-packages, including geomorph and RRPP. These two packages also have the ability to perform pairwise comparisons using the permutation regime specified. Example R-code for implementing both is found below (NOTE: I strongly suggest you read the help files and their examples to better understand the options for these functions: there are many). Best, Dean ## mydat <- read.csv('PCWIDE1.txt', header = TRUE,sep = '\t') spec <- as.factor(mydat[,1]) shape <- as.matrix(mydat[,-1]) summary(manova(shape~spec)) #won’t work. df issue related to N vs. P library(geomorph) gdf<-geomorph.data.frame(spec=spec,shape=shape) procD.lm(shape~spec,data=gdf) advanced.procD.lm(shape~spec,f2 = ~1, group = ~spec, data=gdf) library(RRPP) rdf<-rrpp.data.frame(spec=spec,shape=shape) res <- lm.rrpp(shape~spec,data=rdf) res.null<- lm.rrpp(shape~1,data=rdf) anova(res) PW <- pairwise(fit=res, groups = spec) summary(PW) On Thu, Oct 4, 2018 at 2:06 PM Ian <ijames...@gmail.com> wrote: > I am trying to determine if three groups are statistically distinct from > one another. As is my script produces P values for each x and y coordinate > but i am unsure how to get a comparison between the groups as a whole. My > script and example data are attached. Can anyone tell me how i would go > about determine if the groups Rafalt, Rafnas, and Rafpon are statistically > distinct? I have tried to make subsets to do a pairwise comparison but that > has not been successful. Any input is much appreciated. > > > data1<-PCWIDE1 > > names(data1) > > Raf.manova1<- > manova(cbind(x1,y1,x2,y2,x3,y3,x4,y4,x5,y5,x6,y6,x7,y7,x8,y8,x9,y9,x10,y10,x11,y11,x12,y12,x13,y13,x14,y14,x15,y15,x16,y16,x17,y17,x18,y18,x20,y20,x21,y21,x22,y22,x23,y23,x24,y24,x25,y25,x26,y26,x27,y27,x28,y28,x29,y29,x30,y30,x31,y31)~ > as.factor(Species),data=data1) > > SAV<-summary.aov(Raf.manova1) > > print(SAV) > > -- > MORPHMET may be accessed via its webpage at http://www.morphometrics.org > --- > You received this message because you are subscribed to the Google Groups > "MORPHMET" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to morphmet+unsubscr...@morphometrics.org. > -- Dr. Dean C. Adams Director of Graduate Education, EEB Program Professor Department of Ecology, Evolution, and Organismal Biology Iowa State University -- MORPHMET may be accessed via its webpage at http://www.morphometrics.org --- You received this message because you are subscribed to the Google Groups "MORPHMET" group. To unsubscribe from this group and stop receiving emails from it, send an email to morphmet+unsubscr...@morphometrics.org.