similar to: Agnes Help

Hi, this is rather a (presumed) bug report than a question because I can solve my personal statistical problem by working with hclust instead of agnes. I have done a complete linkage clustering on a dist object dm with 30 objects with agnes (R 1.8.0 on RedHat) and I want to obtain the partition that results from a cut at height=0.4. I run > cl1a <- agnes(dm, method="complete")

Hi, this is rather a (presumed) bug report than a question because I can solve my personal statistical problem by working with hclust instead of agnes. I have done a complete linkage clustering on a dist object dm with 30 objects with agnes (R 1.8.0 on RedHat) and I want to obtain the partition that results from a cut at height=0.4. I run > cl1a <- agnes(dm, method="complete")

I try to perform a clustering using an existing dissimilarity matrix that I calculated using distance (analogue) I tried two different things. One of them worked and one not and I don`t understand why. Here the code: not working example library(cluster) library(analogue) iris2<-as.data.frame(iris) str(iris2) 'data.frame': 150 obs. of 5 variables: $ Sepal.Length: num 5.1 4.9 4.7

Hello, I had a question regarding clustering using the agnes() function from the 'cluster' package. I was wondering if anyone knew how I can identify cluster points after running the agnes function. For example, I created a dataset with points randomly scattered around (0,0), (0,1) and (1,0). After clustering, the dendrogram shows all the clustered points and I get the ordering and

Hi, I'm mighty new to R. I'm using it on Windows. I'm trying to cluster using a distance matrix I created from the data on my own and called it D10.dist. I loaded the cluster package. Then tried the following command... > agnes("E:D10.dist", diss = TRUE, metric = "euclidean", stand = FALSE, > method = "average", par.method, keep.diss = n < 1000,

Hello! I created a distances matrix for 13 objects using daisy (see the attached file). I am trying to clusteranalyse it using agnes but it's not working. What might be the problem: mydistances<-read.csv("Results of daisy.csv") mycluster<-agnes(mydistances, method="ward") I am getting: Error in agnes(mydistances, method = "ward") : NA/NaN/Inf in foreign

Dear R users, I discovered something strange using the function agnes() of the cluster package on R 3.0.1 and on R 2.14.1. Indeed, the clusterings obtained are different whereas I ran exactly the same code. I quickly looked at the source code of the function and I discovered that there was an important change: agnes() in R 2.14.1 used a FORTRAN code whereas agnes() in R 3.0.1 uses a C code.

Hello, In the documentation for agnes in the package 'cluster', it says that NAs are allowed, and sure enough it works for a small example like : > m <- matrix(c( 1, 1, 1, 2, 1, NA, 1, 1, 1, 2, 2, 2), nrow = 3, byrow = TRUE) > agnes(m) Call: agnes(x = m) Agglomerative coefficient: 0.1614168 Order of objects: [1] 1 2 3 Height (summary): Min. 1st Qu. Median Mean 3rd

I haven't read the book, but could anyone explain more about this parameter? help(agnes) says that ac measures the amount of clustering structure found. From the definition given in help(agnes.object), however, it seems that as long as the dissimilarity of the merger in the final step of the algorithm is large enough, the ac value will be close to 1. So what does ac really mean? Thank

Hi, I'd like to plot a tree with images of molecular structures instead of labels (words). I think this is possible because someone who worked in my office before I arrived did this. However I'm not sure if this person made the image manually or plotted it only with R. Thanks in advance for your help. -- View this message in context:

Hi all, I am creating dendrograms using agnes and was wondering if it is possible to add color to the leaves (and just the leaves). For example, in the documentation, they have an example using the "votes.repub" data set. If I wanted to make the word "Washington" green (and only Washington), is it possible and if so how? I can apply "summary" to the object

This message is in MIME format. Since your mail reader does not understand this format, some or all of this message may not be legible. ------_=_NextPart_000_01C35A53.75780090 Content-Type: text/plain; charset="iso-8859-1" Anyone have a clue why hclust() and agnes() produce different results in the example below when both use method="average"?? I'm not able to reproduce

Hi, I want to know if there is a difference between the two hierarchical methods Agnes and hclust when there are used with the same method and the same metric on the same data! I ask this question because I executed the following program: hc <- hclust(dist(AGRIINSTTableFinaleCR), "ward") agnes<-agnes(dist(AGRIINSTTableFinaleCR),method="ward") And clusters are not the

Dear all, I am no stat wiz and I am just trying to use the AGNES algorithm at my very modest level of statistical of understanding. I have difficulties understanding the ouput from AGNES. My question is: how to interpret the output, especially how do you I know which cluster solution is the best? In SPSS, an Agglomeration Schedule table is produced and I used to look at the biggest jump between

Dear R Users: I am new to R and I am trying to do a cluster analysis on a single continuous variable using the Agnes [Agglomerative Nesting (Hierarchical Clustering) ] in the Package ‘cluster’. I was able to apply this clustering method to my data: ward1 <- Agnes(balances, diss= FALSE, metric = "euclidean", stand = TRUE, method = "ward", keep.diss =TRUE, keep.data =

Hello all! I am performingsome clustering analysis on microarray data using agnes{cluster} and I have created my own dissimilarity matrix according to a distance measure different from "euclidean" or "manhattan" etc. My question is, if I choose for example method="complete", how are the distances between the elements calculated? Are they taken form the dissimilarity

Just a thought if the client machines are still getting a listing in the DNS for the failed machines wouldn't this be a problem? How would the programs know not to use the failed server? Is there a way to temporarily move the failed machines out of dns listings? On Fri, Feb 24, 2017 at 8:52 AM, Vinicius Bones Silva via samba < samba at lists.samba.org> wrote: > No, the question is

Hi samba community. I'm having a problem with the smb_auth authentication method. Everything looks like normal, but everytime I try to use smb_auth it returns ERR. I will show here some commands output to secure that all configuration is correct, and if anyone can help me to investigate what's happend I'll thanks. I'm using: Debian lenny, updated. ii samba 2:3.2.3-1

The data "one" is a vector of 553 observations agglone<-agnes(one, metric = "manhattan", stand = TRUE) plot(agglone,which.plots=2, nmax=150) My problem is in the dendogram, I can not see the nodes because it is too crowded. I have attached the diagram. Any help is more than welcome. Thank you a lot!!!

Hello. I have the following distance matrix between 8 points: [1,] 0.000000 3.162278 7.280110 8.544004 7.071068 9.899495 6.403124 8.062258 [2,] 3.162278 0.000000 5.000000 6.403124 4.472136 8.944272 6.082763 8.062258 [3,] 7.280110 5.000000 0.000000 1.414214 1.000000 5.000000 4.242641 5.830952 [4,] 8.544004 6.403124 1.414214 0.000000 2.236068 4.123106 4.472136 5.656854 [5,] 7.071068 4.472136