search for: plclust

Hello everyone, Does anyone know how to implement the argument "unit" in R's plclust function ? I used to use Splus where this argument exists but it has not been implemented in R's plclust. The reason why I switched from Splus to R is that Ward's method is not implemented for S's hclust whereas it is implemented for R's hclust. What I would need is S's plclust...

Dear R I recently performed a cluster analysis. It produced the dendogram no problem but unfortunately the font size of the row.names were all cluttered due to their large size So I tried to change the font size using plclust(cluster.results, labels=iris$specie, cex=0.8) and R came back to me saying Error in plclust(cluster.results, labels = iris$specie, cex = 0.8) : unused argument(s) (cex ...) > what am I doing wrong here brett stansfield

I want to plot the cluster trees from the results of hclust() on different datasets, but all with the same distance scale corresponding to the dataset with the largest distance range. However, plclust() does not accept ylim values. Does anyone know of a way around this problem? Mike White

...I need to plot a dendrogram, but I built a hclust object. Follow the code lines: >dendObject<-list(merge=merge,height=height,order=order,labels=labels,call="hclust(d=d)",method="complete", dist.method="euclidean") >class(dendObject)<-"hclust" >plclust(dendObject,axes=FALSE) Error in cl[[2]] : subscript out of bounds Anybody can help me? -- Marcelo Damasceno de Melo Graduando em Ciência da Computação Departamento de Tecnologia da Informação - TCI Universidade Federal de Alagoas - UFAL Maceió - Alagoas - Brasil Projeto CoCADa - Construção do Co...

I use hierclust (hierarchical clustering) in multiv package. In the documentation it is said that plclust (plotting a dendrogram) is available in S-plus. Can I find it anywhere (I have searched through http://lib.stat.cmu.edu/S and found only quotations of plclust in multiv) or is it only part of the S package (which I don't have)? Thanks --------------- Charles RAUX, Laboratoire d'Economie...

Is the swiss data set in R the same as S dataset swiss.x . I was trying out some clustering by doing the following that I got from Venables and Ripley's book. h<-hclus(dist(swiss.x), method= "connected") plclust(h) cutree(h,3) plclust(clorder(h,cutree(h,3))) I tried swiss instead of swiss.x, it doesnot seem happy. Thanks ../Murli

Good afternoon, After cuting a hierarchical tree using cutree(), how to check correspondances between classes and branches? This is what we do: srndpchc <- hclust(dist(srndpc$x[1:1000,1:3]),method="ward") #creation of hierarchical tree plclust(srndpchc,hmin=20000) #visualisation srndpchc20000 = cutree(srndpchc,h=20000) #returns 4 classes table(srndpchc20000 ) srndclass20000 = cbind(srnd@data[1:1000,],srndpchc20000) #assigning classes to objects srndcents20000 <- aggregate(srndclass20000, by=list(srndpchc20000), FUN=median) matplot(1...

...a "core" library rather than anything exhaustive. > Mainly it is a matter of putting togther code which already exists at > StatLib. Here is my present list (only some of which is finished). > 1. Principal Components > prcomp > 2. Clustering > dist, hclust, plclust, subtree, cutree > kmeans > 3. Canonical correlations (is this ever used?) > cancor > 4. Scaling > cmdscal, sammon, isoscal > 5. Graphics > (Optimal) profile plots > biplots > stars etc > A bunch of Michael Friendly's stuff convert...

im using plclust and want the labels to be different colors. i took a look at getS3method("plot","hclust") and saw a call to .Internal. i looked at the help on .Internal and dont know where to go next. any help appreciated! thanks, rafael

...ant way of just getting the colored labels. data(iris) # Formatting data into required format ir <- iris[ ,-5] ir.class <- c( rep("s", 50), rep("c", 50), rep("v", 50)) ir.hclust <- hclust( dist(ir), "average" ) # Hierarchical clustering plclust(ir.hclust, label =rep("", 150)) # could also set hang=-1 option mtext(ir.class[ir.hclust$order], side=1, col= ir.fac.class[ir.hclust$order], at=1:150, line=-2) This does not color the terminal branch and does not work very well if I wish to cluster 400 - 500 objects as the text gets...

...ere are the functions documented in the Blue Book that I found missing in R (ignoring the ones which are obviously outdated). aggregate allocated amatch axes chull clorder cutree cycle date debugger dget discr faces interp l1fit labclust lag loglin monthplot mstree mulbar napsack odometer persp plclust plotfit rep.int restore rreg sabl sablplot set.seed smooth sort.list Stable stars starsymb storage subtree symbols tempfile tslines tsmatrix tsplot tspoints twoway unlink usa xor In some detail: aggregate cycle lag smooth tslines tsmatrix tsplot tspoints: Obviously useful for time series. An...

Dear List What is the R package equivalent of Proc Varclus or Information Value. ANy assistance in determining R equivalents of f Oblique Component Analysis (PROC VARCLUS), Information Value (IV) and Weight Of Evidence (WOE) analysis, and business intelligence http://www.nesug.org/proceedings/nesug06/an/da23.pdf Regards, Ajay Websites- http://decisionstats.com [[alternative HTML version

...iate function From what I can tell from here <http://stat.ethz.ch/R-manual/R-devel/library/stats/html/dist.html> the above matrix should be a valid format (even without the 0s), but confirmation would be nice. And with hclust, does this produce a tree with the output, or would that be the plclust function? I haven't been able to experiment with this because of my inability to do accomplish the previous question. And last, I want to be able to run R on many different files of the same matrix type. Is it possible to write a (Python) script run through the appropriate tasks and save t...

I frequently use hclust on a similarity matrix. In R only a distance matrix is allowed. Is there a simple reliable transformation of a similarity matrix that will result in a distance matrix making hclust work the same as S-Plus with a similarity matrix? Venables & Ripley 3rd edition implies that a simple reversal of values will suffice. Thanks -Frank -- Frank E Harrell Jr

...le, but it michael> is not *that* difficult. michael> If you are familiar with R, it should take you an michael> hour or two; if unfamiliar, perhaps a day or two. michael> The commands you want (and need to read the help on) are: michael> hclust michael> plclust michael> cutree and I would add identify.hclust() {and rect.hclust()} a very neat but not known / used enough function a link to which I have just added to the help(hclust) page. Look at its examples {not with example() since they are "dontrun"} correcting the extraneous "...

Hi, I am clustering data based on three numeric variables. I have a fourth variable that is categorical (site) which I would like to use to label the leaves of my dendrogram, so I can see how the different sites are grouped throughout the tree, but I do NOT want to use this variable in the cluster analysis itself. Is there any way I can do this? Thanks, Samantha -- View this message in

...on S4 methods and classes. o Changes in package 'mva': - factanal() now returns the test statistic and P-value formerly computed in the print method. - heatmap() has many more arguments, partly thanks to Wolfgang Huber and Andy Liaw. - Arguments `unit' and `hmin' of plclust() are now implemented. - prcomp() now accepts complex matrices, and there is biplot() method for its output (in the real case). - dendrograms are slightly better documented, methods working with "label", not "text" attribute. New rev() method for dendrograms. - plot...

...on S4 methods and classes. o Changes in package 'mva': - factanal() now returns the test statistic and P-value formerly computed in the print method. - heatmap() has many more arguments, partly thanks to Wolfgang Huber and Andy Liaw. - Arguments `unit' and `hmin' of plclust() are now implemented. - prcomp() now accepts complex matrices, and there is biplot() method for its output (in the real case). - dendrograms are slightly better documented, methods working with "label", not "text" attribute. New rev() method for dendrograms. - plot...