similar to: Color code leaves on dendrogram

I am having trouble displaying a dendrogram of evolutionary relationships (a phylogram imported from the ape package) as the vertical component of a heatmap, but keeping the hierarchical clustering of the horizontal component. The relationships of the vertical component in the generated heatmap are not that of the dendrogram, although the ordering is. In more detail, I am attempting to generate

Core developers, I couldn't find any simple way to send a vector of colors to apply to each terminal in plot.dendrogram() or plot.hclust()---I asked R-help about it a few weeks ago and didn't get any response---so I hacked that functionality into the plot.dendrgram code (see below for hacked function plus examples).... Is there any chance this functionality could be added to the

Hi R Users, How to use the function polygon() together with the package scatterplot3d? I am trying to color below of the curves defined for the function density(). I tried to use the site: R GRAPH GALLERY as tutorial. I tried to adapt the example of this page: [figure]: http://addictedtor.free.fr/graphiques/RGraphGallery.php?graph=30 [code]:

Hi - I'm trying to append simple density histograms of a continuous variable to the leaves of an rpart tree. The splits in the tree are all levels of a factor and I'm hoping to make the histograms out of the subsets of the dataframe corresponding to the splits and for them to be attached to the appropriate leaf of the final tree. Any help would be much appreciated, thanks, Jon Zelner

Hello, I am a new R user and have a question regarding dendrogram coloring. I would like to color each leaf in the dendrogram (dhc) according to a specific criterion. For me this criterion is the gene name. For this, I created a data.frame with 2 variables: The gene name and the corresponding color. Using the following function, adapted from "dendrapply {stats}", I still have the same

Dear R-users, I need some help concerning the plotting of dendrograms for hierarchical agglomerative clustering. The agglomeration niveau of each step should be displayed at the branches of the dendrogram. For this I need the x/y coordinates of the branch-agglomerations of the dendrogram. The y-values are known (the heights of the agglomeration), but how can I get the x-values? > mydata

Hi everyone, I'm trying to plot density curves on the axes of a plot, in a similar way to the 'rug' function. I have had a look at a few approaches and libraries, including: * layout http://addictedtor.free.fr/graphiques/RGraphGallery.php? graph=78 * fancygraph http://addictedtor.free.fr/graphiques/RGraphGallery.php? graph=81 * ggplot - gave up since it needs R 2.3.0 and

hello, does anyone know how to add histograms or distributions on regression like just like quantiles regression in RGraphGallery below, a very delicate codes. Thanks alot. http://addictedtor.free.fr/graphiques/RGraphGallery.php?graph=109

Hello, I am trying to create a graphic to help me visualise data. A (very simplified) sample of the data is http://n4.nabble.com/file/n1839676/circle_data.txt circle_data.txt : Aug-07 Nov-07 Feb-08 data1 1 1.5 -1 data2 1 1.2 1.6 data3 1.3 1.4 1.8 data4 1.3

Hallo everyone, I want to evaluate the change of the distribution for several size classes. How can i order these separate histograms with the same y-axis along a common x-axis according to their size classes. It would like it to look a bit like this (http://addictedtor.free.fr/graphiques/RGraphGallery.php?graph=109) without the quantile regression. I can produce the separate histograms, but have

Hi everyone, I'm trying to reduce the font size in the Y  exe in this plot: http://addictedtor.free.fr/graphiques/RGraphGallery.php?graph=150 Anyone knows how to do it? I have checked the argument lab.cex and cex, but any of these works! if you want to check us this code: ### read the data d <- read.csv( file( "http://addictedtor.free.fr/graphiques/data/150/data.txt" ) )

Does anyone have a simple explanation and example on how to add histograms or barcharts to an other graph like in the example at the R-graph gallery: http://addictedtor.free.fr/graphiques/RGraphGallery.php?graph=109 looking at the code I'not undertand very well how to add graphs in arbitrary/clever position with an adequate scale. If somebody have a simplier example with explanations it

I've looked long and hard for this, but maybe I am missing something... There is a nice module that displays histograms reflected in the y axis, i.e. http://addictedtor.free.fr/graphiques/RGraphGallery.php?graph=136 but is it possible to reflect in the x-axis, so to have two datasets, one pointing up and one down rather than left and right? I haven't been able to find a way to plot this

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

Hi everyone, Im very new with R and I would like to change the size text (names) in the ylab in a dotplot. I have checked many webpages and R sites,  but I have not found any help. This is the same structure of the plot in R graph Gallery: http://addictedtor.free.fr/graphiques/RGraphGallery.php?graph=150 thanks in thanks is advance José Mi code is this: ### setup the key k <- simpleKey( c(

Dear List I'm trying to install a package not present in cran named A2R ( http://addictedtor.free.fr/graphiques/RGraphGallery.php?graph=79) After running the demo script I retrieve the following error: cannot change value of locked binding for '._a2r_counter' Please could someone give to me a tip about my error? Thank you very much Here is my sessionInfo() R version 2.15.0

Hi all, Please consider the following code: require(plotrix) l <- list(rnorm(50),rnorm(50,sd=2),rnorm(50,mean=3)) multhist(l) I have two things I need help with: (1) In the output, there are empty spaces on the x-axis. How would I eliminate these spaces? I want a nice, smooth, empty-spaceless x-axis. (2) How could I add tracing lines to each histogram? I am undoubtedly using the wrong

Hi- I am trying to find a way to diffuse GIS data on a European map. I have a dataset consisting of particular locations scattered across Europe, along with magnitude and value information. I can plot these as discrete points with something like the following: "geocode" is a dataframe with four columns: LAT; LONG; MAGNITUDE;VALUE. library(maps) library(mapdata)

Dear r-list, I am trying to visually seperate the two main clusters of a dendrogram. The idea is to use: 'edgePar=list(lty=3)' for 'dend1[[1]]' and 'edgePar=list(lty=1)' for 'dend1[[2]]' I have not found a way to solve this. Any suggestions? Patrick hc <- hclust(dist(USArrests), "ave") (dend1 <- as.dendrogram(hc)) par(mfrow=c(2,2)) plot(dend1)

Dear all, I have been trying the following without avail and would be very grateful for any help. From a dendrogram (recursive list of lists with some structure), I would like to obtain some information of the component lists and of the enclosing list at the same time. In dendrogram-speech I basically would like the label of the leaf and the height of the enclosing branch. A dendrogram example