similar to: (Fisher) Randomization Test for Matched Pairs: Permutation Data Setup Based on Signs

Hi, I have two groups of data of different size: group A: x1, x2, ...., x_n; group B: y1, y2, ...., y_m; (m is not equal to n) The two groups are independent but observations within each group are not independent, i.e., x1, x2, ..., x_n are not independent; but x's are independent from y's I wonder if randomization test is still applicable to this case. Does R have any function

Hi guRus, My discipline (experimental psychology) is gradually moving away from Null Hypothesis Testing and towards measures of evidence. One measure of evidence that has been popular of late is the likelihood ratio. Glover & Dixon (2005) demonstrate the calculation of the likelihood ratio from ANOVA tables, but I'm also interested in non-parametric statistics and wonder if anyone has any

Hello, I have what I suspect might be an easy problem but I am new to R and stumped. I have a data set that looks something like this b<-c(2,3,4,5,6,7,8,9) x<-c(2,3,4,5,6,7,8,9) y<-c(9,8,7,6,5,4,3,2) z<-c(9,8,7,6,1,2,3,4) data<-cbind(x,y,z) row.names(data)<-c('a','b','c','d','e','f','g','h') which gives: x y z

Hello, here is the problem: I want to demonstrate that, on average, the Pearson's correlations of a specified subset of genes from a huge list (>18,000 columns) are higher than any randomly chosen subset of that list. I would therefore like to do a number of tests between that specified subset and randomly chosen ones from the "mother" list. How could I do that? What would be

I all, is there a way with R to perform an exact permutation test to replace the wilcoxon test to compare paired series and/or to perform pairwise multiple comparisons for related series after a Friedman test ? Thanks Gilles

Hi all Consider the classic data below from Darwin on the heights of 15 pairs of zea mays (corn) plants either cross-fertilized or self-fertilized, where the goal is to see if it makes a difference. > head(ZeaMays) pair pot cross self diff 1 1 1 23.500 17.375 6.125 2 2 1 12.000 20.375 -8.375 3 3 1 21.000 20.000 1.000 4 4 2 22.000 20.000 2.000 5 5 2 19.125

I am perfectly aware that this question is not an R question, at least not yet, but I have not succeeded in finding what I want in other ways, so ... What I am looking for are two algorithms, preferabley in Pascal, but other languages may do. For (a) systematic (complete) permutations for grouped data with unequal group sizes, and (b) random permutations for the same kind of data. I know

Hi, I have optimized the shrinkage parameter (GCV)for ridge and got my r2 value is 70% . to check the sensitivity of the result, I did permutation test. I permuted the response vector and run for 1000 times and draw a distribution. But now, I get r2 values highest 98% and some of them more than 70 %. Is it expected from such type of test? *I was under impression that, r2 with real data set

Dear R helpers, I am trying to understand how to use the independence_test function in the coin package. I think I suffer from a misunderstanding about what the package does. Either that or I do not understand how to use it properly. Specifically, I cannot understand if I can test independence of arbitrary statistics. Take the following example: set.seed(10) d <- data.frame(y = c(rnorm(10,

Hi, I've got two hosts. Most of my guests are Windows systems. I'm using LANBench to test network performance. 1) From an physical PC to a guest (it doesn't matter on which host), I get almost 1Gb/s. They are connected through a 1Gb/s swich => very good! 2) From a guest on one host to a guest on the other host => plusminus 1Gb/s => Okay! 3) Between two guests on the same

Hi, I am very new to R. Just started yesterday. I have to generate a sequence of 40 random treatments using permuted block randomization with a block size of 8. Then I have to plot moving averages for the resulting sequence. I have tried the sample function but I dont know if wht i did is right or not > sample(c(1,1,1,1,2,2,2,2),8) Any ideas please? -- Ayesha Khan MS Bioinformatics Dept. of

I am looking for an algorithm (written in R (preferably) or C, but even pseudo-code in a text book maybe fine) to determine the sign of a permutation. What is that? Well, a permutation is either even or odd, the sign is +1 or -1, respectively, see, e.g., http://en.wikipedia.org/wiki/Signature_of_a_permutation which also says >> In practice, in order to determine whether a given

Hi, I'm trying to run a permutation test on paired samples. First I tried the package "exactRankTests": require("exactRankTests") x <- c(1.83,0.50,1.62,2.48,1.68,1.88,1.55,3.06,1.30) y <- c(0.878,0.647,0.598,2.05,1.06,1.29,1.06,3.14,1.29) wilcox.test(x,y,paired = TRUE,alternative = "greater") perm.test(y,x,paired = TRUE,exact = TRUE,alternative =

Hello list, I wish to perform a randomization test on the F-statistics of a 2 way ANOVA but have not been able to find out how to do so - is there a package / function that can perform this that I am unaware of? FactorA has 6 levels (0,1,2,3,4,5) whereas FactorB has 3 (1,2,3). A sample: Resp. FactorA FactorB 2 0 2 3 1 2 1 2 2 0 3 2 0 4 2 0 5 2 4 0 1 6 1 1 1 2 1 0 3 1 1 4 1 0 5 1 2 0 2 3 1 2 1

Hi, Is there any R package doing permutation/randomization test for PLS/PLSDA? I found some codes for MatLab, but I want to use R program. Thank you very much in advance. Kohkichi Hosoda

Dear all, I am a statistician doing research in QSAR, building regression models where the dependent variable is a numerical expression of some chemical activity and input variables are chemical descriptors, e.g. molecular weight, number of carbon atoms, etc. I am building regression models and I am confronted with a widely a technique called Y-RANDOMIZATION for which I have difficulties in

Dear R users, i have this problem with matrices i want to check between two matrices if they are isomorphic i will give an example for what excactly i want   1 -1  1                                 -1  1   1 -1   1  -1                                1  -1  -1   1  1   -1                                1   1  -1 this two matrices are isomorphic beacause if i change the first 2 columns the matrices

Dear All, I'm trying to draw a TeX histogram with the following pair of commands, pictex(file = "realhisto.tex") hist(Peaklist$V3,xlab="Height $z/\\ut{mm}$",ylab="Probability density $\\phi{}(z-z_0)/(1/\\ut{mm})$") However, in the resulting file realhisto.tex, I get, for example \put {Height \$z/\ut\{mm\}\$} [lB] <0.00pt,0.00pt> at 136.13 9.17 when

Dear all, Dose anyone know whether there is a good R packege or program for Mantel's randomization test? Thanks in advance. ------------------------ Takashi Mizuno zoono at sci.osaka-cu.ac.jp Plant Ecology Lab. Osaka City University ------------------------ -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- r-help mailing list -- Read

Hello, Today I succesfully transfered some testfile on my local computer with the following command: rsync -e "ssh" testfile.txt localhost:receive I can also succesfully connect with SSH to a remote server through an http proxy with the following command: ssh -o "ProxyCommand corkscrew myhttpProxy 8080 targetcomputer.domain 22" targetcomputer.domain But I'm so far