similar to: ylim in dendrogram plot ... error

it seems that word can not read encapsupalted postscripts generated by R I used this command postscript("output.eps",horizontal=F,onefile=TRUE) since onefile=TRUE produces an encapsualted postscript actually what I'm trying to do is to insert the postsript file into a word document since other formats like jpeg and bmp do not reproduce the same quality like postscript formats any

dear helpers, I wonder if there is a way to read a molecular dynamic trajectory file ( binary file) produced by CHARMM into R. Something like that in matlab. Actually this will save tremendous effort in post processing. best regards karim

Hello everyone, I have tried to look for this everywhere and so far have no luck. I have a plotMeans(DV, IV1, IV2, error.bars="se") graph that plots my data (DV-continuous, IVs are factors, IV1 - two levels, IV2-four levels). I am trying to increase a scale of my y-axis (to be consistent with my other graphs), but unfortunately nothing works with "plotMeans" function, which

I'm using R 1.7.1 under linux redhat it seems that the eigen values produced by eigen() do not follow a consistant order; I mean either ascending or discending e.g for one system: eigenV<-eigen(V) > print(eigenV$values) [1] -7.706828e+13 -4.702980e+13 -3.267579e+13 -1.701297e+13 -8.041677e+12 [6] -5.707311e+12 -5.053941e+12 -4.774652e+12 -4.280423e+12 -3.798905e+12

The following single line of code shows what I am trying to do, and the problem I am having... barplot(c(101,102,103),ylim=c(100,103)) The 'xaxis' is missing, and the grey bars 'fall off' the plot area. This is generally ugly, and I would like to trim the bars (ideally they would have a ragged appearance to show that I am 'zooming in'). I can see why what I am trying to

Hi I've made a dendogram but I cannot label with text that I have on one of the columns of the data, anyone can help me thanks Ana [[alternative HTML version deleted]]

Dear all, I have a large vector (lets call it myVector) and I want to plot its value with the logic below yaxis<-myVector[1] yaxis<-c(xaxis,mean(myvector[2:3]) yaxis<-c(xaxis,mean(myvector[4:8]) yaxis<c(xaxis,mean(myvector[9:16]) yaxis<c(xaxis,mean(myvector[17:32]) this has to stop when the new ..... yaxis<c(xaxis,mean(myvector[1024:2048]) will not find the correspondent number

Hi, I am trying to plot odds ratios and the corresponding confidence intervals in horizontal segments. It would be ideal if the confidence interval segment can be drawn with little vertical bars at both ends. I have tried very hard to change the type of ends by using 'lend' arguments, but cannot make it. I even tried 'arrows()', but still failed. Following is the code I use:

Hi, am using Openflashchart plugin,How can we change the color of each bar in Hbar openflash chart this is the code i have inside my controller def stat_bar title = Title.new(session[:tag]) hbar = HBar.new hbar.values = [HBarValue.new(0,10),HBarValue.new(0,20)] hbar.colour = ''#FF8000'' # this works for the two bars chart = OpenFlashChart.new

I have some code as shown below. Basically, I would like three boxplots to be set next to each other with no ylabels on the two "inner" plots, and I want the same x axis range on all three. However, it seems like boxplot does not respect the xlim setting. I've tried the various ways I thought would work (par, boxplot(...xlim=)) but none of them seem to work. I then tried plot.window,

I am using R for hierarchical clustering of a number of documents. I have a distance matrix on which I have applied hclust method. When I plot the result of hclust method, I can see the dendogram plotted. What I need now is the dendogram stored as a tree in a data structure. My goal is to automatically label all internal nodes. For that, I need to know, which leaf nodes make a first level

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

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

list(...), I would like to zoom in to the leaves of large trees in a dendrogram plot. The playwith package allows zooming by passing xlim and ylim arguments to the plot call (Hmisc does this too I think). But currently stats:::plot.dendrogram does not accept xlim or ylim. So I would like to enable that. In place of the existing code chunk: xlim <- c(x1 - 1/2, x2 + 1/2) ylim <- c(0,

Hi everyone, I am using the fastgreedy.community function to get the $merges matrix and the $modularity vector. This serves my purpose of testing modularity of my graph. But I am "greedy" to plot the heat map and dendrrogram based on the $merges dendogram matrix. I know that heatplot does the graphics part but I am not sure if the dendogram generated by the heatplot will match the one

Hello everyone! I have two questions regarding cluster analysis with the package 'cluster' : 1. I have a dissimilarity matrix in csv format, and I would like to use it to generate a dendogram using 'hclust'. How do I make that matrix compatible with the function? I think it has to be similar to the objects generated by the 'dist' function. Any ideas? 2. Does

plot.ts has an argument yax.flip, plot.zoo does not. Is there a way to make the yaxis flip in plot.zoo? I tried using a custom panel function: panel.yaxis<-function(...) { npnl<-parent.frame$panel.number if (npnl %% 2 == 0) { axis(side=3) } else { axis(side=2) } } This leads to a blank window. I am stuck with the intricacies of the plotting and axis

Dear R-help, I have performed a hierarchical clustering on some data that I have and would like to know some nice ways of visualizing it. I have 2 related questions: i) How to color the labels AND the terminal branch of a dendogram? This is my inelegant way of just getting the colored labels. data(iris) # Formatting data into required format ir <- iris[ ,-5] ir.class <- c(

Hi,   I need to generate a heatmap on a square matrix and wouldn't want to reorder the columns and the rows on the heatmap display.    I have used the options Rowv=NULL and Colv=NULL but doesn't seem to work. Following is a snippet of the heatmap function i am using. args <- commandArgs(); inputfile <- args[2] imgfile   <- args[3] bitmap(imgfile, height=15, width=15, res=100,

Hi R list, I like the default ticks that are set up using grid.xaxis() or grid.yaxis() with no arguments. Finding good values for the 'at' argument is usually not a trivial task; the default behavior of these functions seems to work well. The problem with this strategy is that I cannot figure out how to "recover" the positions of these ticks when you do NOT specify the