similar to: Understanding hclust and dendrogram

Dear helpers, I am trying to use the mda package downloaded from the R website, but the data set has missing values so I got an error message. Should I manually handle these missing values? I was trying to read the documents to specify any option related to missing values, but I did not find it. Please forgive me if I ignore something obvious. Thanks, Zhu Wang Statistical Science Department

Hi, I'm just wondering does anyone know of a good site that would assist me in creating a spam filter through R? It is for a college project. I have searched the net but cannot find anything of relevance. Any help would be greatly appreciated.... Regards, -- View this message in context: http://www.nabble.com/An-R-SPAM-Filter-tp15530304p15530304.html Sent from the R devel mailing list

Anyone know if it is possible to get the R scripts used in the "The Elements of Statistical Learning" book? It is a great book but sometimes some help would be useful to replicate the results presented in the book and so, understood things better. Thanks Manuel -- View this message in context:

R people, I need to know if is possible to make data mining with R. If so, is there any manual or somewhere/one to consult about that. Thank you very much Adri?n

Does anyone know of an R interface to Christian Borgelt's implementation of the FP growth algorithm? thanks a lot Rob Tibshirani -- I get so much email that I might not reply to an incoming email, just because it got lost. So don't hesitate to email me again. The probability of a reply should increase. Prof. Robert Tibshirani ?Depts of Health Research and Policy, and Statistics

I've put all ``current'' add-on packages into CRAN's source/contrib tree and created an INDEX file (attached below). As you can see, currently we have acepack bootstrap ctest date e1071 fracdiff gee jpn snns splines survival4 (Yes, e1071 and jpn are new ... more on the latter in a later mail.) In the near future, I am hoping for the following: oz (Bill

Hello, a. when I use hclust with the methods media, centroid, and mcquitty, and plot the results, the dendrograms have lines that are crossing each other. Is this ok? b. My next question refers to plot.dendrogram: How can I use parameters as "hang" or "cex" here? E.g. for st <- as.dendrogram(subtreeshc[[x]]) I would like to have something like this, where cex and hang

Hi Sorry if this is in the help :-S I've looked at example(dendrogram) and though it gives some indication of what I want, it doesn't do all. OK, so here is what I want to do: draw a tree, and then have an action, on user-click, to either draw a sub tree or a plot of the data. I also want users to be able to search for a particular label and have it highlighted on the tree, say in

Hi all, This is the first time I'm writing to R-devel, and this time I'm just asking for the purpose for a certain line of code in stats::as.hclust.dendrogram, which comes up as I'm trying to fix dendextend. The line in question is at line 128 of dendrogram.R in R-3.3.3, at stats::as.hclust.dendrogram: stopifnot(length(s) == 2L, all( vapply(s, is.integer, NA) )) Is there any

Hi, I clustered a distance matrix and would like to draw it using plot.hclust or plot.dendrogram. The dendrogram is not informative because I have a few extremely small dissimilarities in the distance matrix (e.g. 0), but most of the other distances are in the range 1e10+-5000. I would like to show the tree only for the height of 1e10+-5000 but unfortunately their are no parameter like

Hi all, I've been doing some investigation to see if it is possible to implement an hclust/dendrogram related requirement that I've been given. So far ?hclust and a lot of googling haven't provided the information I'm looking for (I've been using R sporadically for a year). The requirement I have is to: On a dendrogram plot, draw points at various merge locations, based on

Hi R helpers... I am having troubles because of the discrepancy between the dendrogram plotted from hclust and what is wrote in the hc2Newick file. I've got a matrix C: > hc <- hclust(dist(C)) > plot(hc) with the: > write(hc2Newick(hc),file='test.newick') both things draw completely different "trees"... I have also tried with the raw distance matrix D and

I have tried to use rect.hclust() to draw a rectangle around a set of leaves, but am running into trouble. The rect.hclust() is drawing two rects instead of one, and of the wrong size: -------------------- scoreClusterObj <- hclust(scoreDistanceObj, method=clustMethod) order <- scoreClusterObj$order orderedLabels <- rep(0, length(order)) for (orderIndex in 1:length(order)) { # this

Hello all, I manually created an hclust object. Now I am looking to reorder the leafs so they won't intersect with each other, and would be happy for advises on how to do that. Here is an example code: #------------------------------------- a <- list() # initialize empty object # define merging pattern: # negative numbers are leaves, # positive are merged clusters (defined by row

plot.hclust: Setting up a window for a dendrogram assumes the first link is the shortest and the last is the longest. This is not always the case when the clustering was done with hclust, method="median" or method="centroid", and the dendrogram sometimes doesn't fit within the window. I propose the fix listed below. src/main/ --- plot.c Wed Sep 17 01:03:39 2003 +++

Dear R-Help, I have a clustering problem with hclust that I hope someone can help me with. Consider the classic hclust example: hc <- hclust(dist(USArrests), "ave") plot(hc) I would like to cut the tree up in such a way so as to avoid small clusters, so that we get a minimum number of items in each cluster, and therefore avoid singletons. e.g. in this example, you can see

Hello All, Recently, I was asked to help out with an SEM cross-validation analysis. Initially, the project was based on "sample-splitting" where half of cases were randomly assigned to a training sample and half to a testing sample. Attempts to replicate a model developed in the training sample using the testing sample were not entirely successful. A number of parameter estimates were

This ancient bug was tracked to the acepack library, line 556 in line src/avas.f The troublesome line is: if (x(n).gt.x(1)) go to 30 Since the input arguments are empty, referencing x(1) and x(n) cause a Segmentation fault, and cause R to crash. Acepack author and maintainer Rob Tibshirani <tibs at utstat.toronto.edu> has been contacted with this information. This is not a

Good afternoon, I ran heatmap and hclust on the same matrix x (strictly, I ran heatmap(x), and hclust(dist(t(x))), and realized that the two dendrograms were slightly different, in that the left-right arrangement of one pair of subclusters (columns) was reversed in the two functions (but all individual columns were grouped correctly). Looking through the code for heatmap as a most definite

Hallo everybody, I have a question concerning plotting of hclust dendrograms. I created several of those dendrograms and like to plot them in different plots. I'd like to have all plots with the same scaling of the y axis so that they become comparable by eye. That means they should all start at y=0 and end up with a certain given value, e.g. y=8. I tried the following: plot(