search for: anosim

Hello, I am interested in using ANOSIM (analysis of similarities) which is part of the vegan package. When I look at the programmers notes they mention that "They don't quite trust this method, and someone should study it closely." I was just wondering if this had been done, and whether it had been found reliable or not?...

Hello all, I used google and looked at the documentation to find out why the ADONIS function is called adonis (in the vegan package). I am writing a document and would like to include a abbreviation list (similar to "ANOSIM = Analysis of Similarities"). regards, Steve

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...a hclust object. I can't seem to find information on how to change the default output of a "hanging" style tree with the axis on the right to a left-to-right plot with and axis on the bottom. Example code follows: library(vegan) #loads the "vegan" module that compuptes ANOSIM library(cluster) community <- read.csv("ANOSIMmites.csv", header=TRUE) #reads the data file into memory under the name "community" enviro <- read.csv("ANOSIMenv.csv", header=TRUE) #reads the grouping variables into memory attach(enviro) attach(community) commun...

Hi, My name is Mauro Belleggia, I m doing an ANOSIM (using "vegan" package) to test statistically whether there is a significant difference between 3 (1,2 and 3) groups of sampling units. My results were: Call: anosim(dis = distancias, grouping = Lt) Dissimilarity: bray ANOSIM statistic R: 0.1313 Significance: < 0.001 Based on...

...ions that earlier only had simple permutation. Of course, you do not need to use fancy permutation schemes, but the default is still simple permutation and this can be expressed by giving just the number of permutations on the command line. The functions using the new permutation scheme are adonis, anosim, anova.cca for CCA/RDA/dbRDA and hence also for ordistep etc., CCorA, envfit, mantel & mantel.partial, mrpp, mso, permutest.betadisper, permutest.cca, protest and simper. The change for functions is now complete, but same clean up and updating of documentation is still to be done. This is discu...

...corded from each core (variables 1 to 39 in the file are nematode worms and variables 40-56 in the file are copepods, as identified by the column headed "Taxon"). Note that the *rows *are the species and the *columns *are the scores (sample units) in the raw data file. When i want to do ANOSIM i get an NaN error message. What is wrong? R output is here under > tasmania.df=read.table(file.choose(),header=T) > attach=(tasmania.df) > tasmania.df Species Taxon D1 D2 D3 D4 D5 D6 D7 D8 U1 U2 U3 U4 U5 U6 U7 U8 1 Actinonema.sp Nem 0...

Hello R-help Readers I'm currently in the process of trying to write a permutation test procedure for looking at differences between groups with a multivariate data set (something equivalent to ANOSIM - analaysis of similarities for those familiar with this test). As with other permutation tests, for cases where there are large numbers of possible permutations, randomly sampling from these is appropriate, and can be done simply using sample(vector_x) to create each random permutation. Howeve...

Dear all As part of an ongoing study on the ecomorphology of ant communities, I have obtained a matrix with 156 row (species) and 20 columns (several measurements of body shape) for 4 localities. For each community, I calculated a matrix of Euclidean distances between all pairs of species. From this matrix, I extracted two measures of community structure: i) I identified the distance from a

Dear Sir, I would like to ask whether there is any tool in R, developed for the function of non parametric Anova, where the non parametric analysis is able to compute the p-value for interaction as well (similar to Anova)? If not, would sir like to suggest any of the other statistical software around which would have this tool? Thank you. LYLing. ?SAVE PAPER! SAVE THE WORLD! - Please do not