similar to: heatmap clustering dendrogram export

Hi, I update R from 2.10 to 2.13. Then I find soma problems when I start R. Warning infos as below: ##### Warning message: In normalizePath(c(new, .Library.site, .Library), "/") : path[1]="": No such file or directory R version 2.13.1 (2011-07-08) Copyright (C) 2011 The R Foundation for Statistical Computing ISBN 3-900051-07-0 Platform: x86_64-pc-linux-gnu (64-bit) R is

On the cover of Zivot and Wang's Modeling Financial Time Series with S Plus, there is a correlation plot that seems to indicate the strength of correlation with color-coded squares, so that more highly correlated stocks appear darker red. If anybody out there is familiar with the book or understands what I am talking about, I am curious as to whether or not there is a similar function in R

I'm trying to follow docs/Projects.html to use llvm in a project of my own. If I just copy the sample directory, running configure in the new one works fine: ~/programming/llvm-1.9/projects $ cp -a sample/ zhe ~/programming/llvm-1.9/projects $ cd zhe/ ~/programming/llvm-1.9/projects/zhe $ ./configure configure: creating ./config.status config.status: creating Makefile.common config.status:

Hello Scott, On Wed, 2007-02-21 at 18:57 -0500, me22 wrote: > I'm trying to follow docs/Projects.html to use llvm in a project of my own. > > If I just copy the sample directory, running configure in the new one > works fine: > ~/programming/llvm-1.9/projects $ cp -a sample/ zhe > ~/programming/llvm-1.9/projects $ cd zhe/ > ~/programming/llvm-1.9/projects/zhe $

On 2/23/07, Reid Spencer <rspencer at reidspencer.com> wrote: > > However, if I run the AutoRegen.sh script (after modifying it to > > accept autoconf 2.61, which I think is fine as gentoo slots it the > > same as the 2.5[0-9] versions), the configure no longer works: > > ~/programming/llvm-1.9/projects/zhe $ cd autoconf/ > >

Bug Using read.table(file, encoding="UTF-8") to import a UTF-8 encoded file containing the infinity symbol (' ? ') results in the infinity symbol imported as the number 8. Other Unicode characters seem unaffected, example, Zhe: ? Expected Behavior: The imported data.frame should represent the infinity symbol as the expected 'Inf' so that normal mathematical operations

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

I can confirm that it doesn't happen on Ubuntu 18.04.1 so Peter is most likely correct; it looks like its Windows specific. On Thu, 7 Feb 2019 at 12:55, peter dalgaard <pdalgd at gmail.com> wrote: > > This doesn't seem to be happening on MacOS, neither in Terminal nor RStudio, (R 3.5.1, R-devel, R-patched). So probably Windows specific. > > -pd > > > On 7 Feb

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,

Hola a todos, Estoy trabajando con la función heatmap.2() de la libreria ggplots. A continuación encontrarán un ejemplo de la estructura de mis datos y el código para generar el gráfico que me gustaría modificar: # Datos set.seed(123) x <- matrix(rnorm(8*30), ncol = 8) rownames(x) <- paste(''GM10A'',1:30,sep="") colnames(x) <-

Hello, I have a large (919 X 919), hierarchically clustered heatmap that I would like to read the labels off of. I have tried saving the figure in pdf format and enlarging it until I can see the labels, but if I make the labels small enough to read (so that they don't overlap) using cexRow and cexCol, they do not appear in the pdf. The limit seems to be anything below cexRow or Col = 0.06.

I can reproduce this behavior on my Windows 10 system in RGui (cp1252): when I paste the Unicode infinity symbol into the console, it is treated as number 8. This is caused by Windows "best fit" default behavior in conversion of unicode characters to characters in the current native encoding: at some point in the past, 8 has been chosen as a good fit for infinity in Windows. In my

Full_Name: Peter Fischer Hallin Version: Version 1.8.1 OS: Irix64 Submission from: (NULL) (130.225.67.236) I've made a script look like this: exp <- read.table("graph/1933672048.cluster.data") exp <- as.matrix(exp) postscript("graph/1933672048.cluster.data.ps") heatmap(exp,scale="none",cexCol=0.4,cexRow=0.2,col=custom,margins=c(5,5)) The row labels

I generated a heatmap in R using the following commands: > mydata <- read.csv(file="Data.csv", header=TRUE, sep=",") > mydata <- mydata[rowSums(mydata[,-1]^2) >0, ] > rownames(mydata)=mydata$Name > mydata <- mydata[,2:253] > mydatamatrix <- data.matrix(mydata) > mydatascale <- t(scale(t(mydatamatrix))) > hr <-

Dear list, here are my two data frames: av <- structure(list(DESCRIPTION = c("COFFEE C Sep/10", "COPPER Sep/10", "CORN Dec/10", "CRUDE OIL miNY Sep/10", "GOLD Aug/10", "HENRY HUB NATURAL GAS Sep/10", "PALLADIUM Sep/10", "SILVER Sep/10", "SOYBEANS Nov/10", "SPCL HIGH GRADE ZINC USD", "SUGAR

I generated a heatmap in R using the following commands: > mydata <- read.csv(file="Data.csv", header=TRUE, sep=",") > mydata <- mydata[rowSums(mydata[,-1]^2) >0, ] > rownames(mydata)=mydata$Name > mydata <- mydata[,2:253] > mydatamatrix <- data.matrix(mydata) > mydatascale <- t(scale(t(mydatamatrix))) > hr <-

Hi, I'm trying to R CMD check a package, however I have hit a snag. There seems to be a problem with the creation of the /html files (the only file that's constructed here is the 00Index.html). I've tested each of the .Rd files independently with R CMD Rdconv, they all happily create html files without complaint. R CMD check <package> gives the no warnings. I'm therefore

I have the following code that perform hiearchical clustering and plot them in heatmap. __ library(gplots) set.seed(538) # generate data y <- matrix(rnorm(50), 10, 5, dimnames=list(paste("g", 1:10, sep=""), paste("t", 1:5, sep=""))) # the actual data is much larger that the above # perform hiearchical clustering and plot heatmap test <- heatmap.2(y)

Dear R users, need help with my heatmap. I will really approciate some help. Given the matrix: > head(x) A B C D time [1,] 0 8 0 0 1 [2,] 0 160 0 0 2 [3,] 0 175 0 0 3 [4,] 0 253 0 0 4 [5,] 79 212 0 0 5 [6,] 6 105 0 0 6 and call: ##------------ Heatmap -------------- library(RColorBrewer) rc <- grey((nrow(x):1)/nrow(x)) heatmap(data.matrix(x[,1:4]),

Hi, I'm trying to save heatmaps as PDFs. However, the PDF version of the heatmaps (Heatmap_CAFvsTNF_run2.pdf) is blurred when compared to its counterpart, which was saved manually by using the software "Grab" (Heatmap_CAFvsTNF_run2.tiff). -----R code-------- sample_output <- "stroma_run2" filename <-