similar to: Overlap of leaf labels

Hey Everyone! I wanted to carry out Hierarchical clustering using distance matrices i have calculated ( instead of euclidean distance etc.) I understand as.dist is the function for this, but the distances in the dendrogram i got by using the following script(1) were not the distances defined in my distance matrices. script: var<-read.table("the distance matrix i calculated",

Hello, I am new to the R package. After I use R to perform the hierarchical clustering, I am only interested in retrieving the leaf nodes that share the last common ancestors. As illustrated below, I'd like to retrieve (B, C) as a cluster and then (D, E) as another cluster. Any chance to do this in R? Thanks! BTW, I just subscribed to this list (not sure if the subscription is

Dear All, How can the height of a leaf be extracted from a dendrogram? Sure, I can print it, but I am not able to, say, store it in an object. I think I understand that the height is a property of the split, not the leaf itself, but the printing functions display a "height" or "h" (which changes with "hang") and that is what I want. Obviously, the info is there

Hi All I am tying to create a user in SAMBA 4 AD with ldapadd, but its not allow me to add multiple mail attributes, here is my ldif of user. dn: CN=ayesha,CN=Users,DC=samba4pdc,DC=net objectClass: top objectClass: person objectClass: organizationalPerson objectClass: user cn: ayesha name: ayesha sAMAccountName: ayesha userPrincipalName: Ayesha Umar objectCategory:

Ho Mourik Thanks for your reply, any other attribute which we can duplicate? Br. Umar On Fri, Jan 23, 2015 at 1:47 PM, mourik jan heupink - merit < heupink at merit.unu.edu> wrote: > Hi, > > In AD, the attribute mail can only exist once. > > MJ > > On 01/23/2015 05:27 AM, Umar Draz wrote: > >> Hi All >> >> I am tying to create a user in SAMBA 4

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 have a matrix with the following dimensions 136 3 and it looks something like [,1] [,2] [,3] [1,] 402 675 1.802758 [2,] 402 696 1.938902 [3,] 402 699 1.994253 [4,] 402 945 1.898619 [5,] 424 470 1.812857 [6,] 424 905 1.816345 [7,] 470 905 1.871252 [8,] 504 780 1.958191 [9,] 504 848 1.997111...............

Hi , I want to assign names to the rows in my matrix so that when I use the 'agnes' function from R cluster package , the dendogram that is produced represents the rows of the matrix. This way I would know what elements in the matrix are clustered together. But when I do the following, rownames(distF) <- paste("A",dim(distF)[1]) it gives the following error; Error in

Hi, I'm trying to calculate euclidean distance for my matrix rx1. Its a big matrix with 947 elements. However when i do the following, for(k in 1:947) for(m in (k+1):947){ A =rbind(A,c(k,m,ED(rx1[,k], rx1[,m]))) } I get the following error: ED(rx1[,k], rx1[,m]) : subscript out of bounds I checked for k in 1:100 and it runs fine; its a huge matrix and takes atleast an hour to run before I

Dear users, My problem concerns save() within a for loop. Here is my code: for (i in 1:4) { temp <- data.frame(a=(i+1):(i+10), b=LETTERS[(i+1):(i+10)]) filename <- paste("file", i, sep="") assign(filename, temp) save(filename, file=paste(filename, ".rda", sep="")) } As you can see, save() doesn't work as I would like: (1) the object

Hello everyone, I have versions 2.7.2 and 2.10.1 installed on a machine that has no access to internet. In 2.7.2 I can use ? to get help on functions, which in 2.10.1 that does not work, all I see is "starting httpd help server...done" and then nothing. Have I downloaded 2.10.1 incorrectly (=forgot to tick some box for local help file repository) or is the internet help now the

Hey all, I am writing a function in which I will have a matrix of 4 columns and a variable amount of rows. The first to columns will always contain be of the Character type, the third and fourth columns can be a variation of data types, usually characters and integers, but sometimes lists or matrices. At one point the code makes, for each row, a copy of that row, then it makes some adjustments

Dear users, I would like all the ticks on a boxplot (x and y) to be labeled I have checked all the par() arguments but couldn't find what I'm looking for Here is an example to show it: df <- structure(list(SPECSHOR = structure(c(1L, 1L, 1L, 3L, 3L, 3L, 3L, 3L, 4L, 4L), .Label = c("cotau", "dibic", "eqgre", "gicam"), class =

sorry I had a mistake sending my question without a subject. I do resend again. Please excuse me. > Hello > I have a data array with soil variables (caperf), in which the variable "clay" is factor (as I see entering str(caperf)) . I need to do a regression model, so I need to have arcilla (=clay) as a numeric variable. For that I have entered > >

Hello, How can I read a xlsx file using xlsx package? Thanks Albert [[alternative HTML version deleted]]

I want to change leaf color by group in hclust plot. I've seen several answers about A2R package but I cannot install A2R and Rtools in windows. Do you know how to install A2R package in windows or how to change leaf color by group in hclust plot? Thank you in advance, Soyeon

Dear users, I have looked on different sources and found different functions to prompt the user to provide input. However, I couldn't find one that does exactly what I'm looking for. select.list() and menu() are nice because a graphic window appears to prompt the user. However, the user can only choose from a predefined list of choices. readline() and scan() are more free in the

Greetings, I am a very novice user with R, and in the course of running a linking procedure : P.old<- function (a, c, b, xi){ #a contains a parameters #c contains c parameters #b contains b parameters #xi is a one column vector containing quadrature points for xi(=theta-gamma)for one item tmp <- a*(xi-b)

It looks from str(SA) that Response IPS1 is a data.frame of class "anova", which probably cannot be coerced to vector. Maybe you can use unlist() instead of as.vector() Or something like SA[["Response IPS1"]]["as.factor(WSD)",] ## to select the first row only, even maybe with unlist() Without a better REPRODUCIBLE example, I cannot tell more (maybe some others

Hi. I am getting an "unexpected symbol" error, which I haven't gotten before. I have checked my data and searched the FAQ. I hoping someone has a suggestion on what I might be doing wrong? Thanks! A. Gray Fisheries Consultant Here's the code I'm using and the error: > 0708smolts <- read.csv("C:\Documents and Settings\ayesha\My