similar to: axes start at end of plot

Hi all, I used image.plot() to create a heat map of a matrix: as.matrix(read.table("Matrix.txt", sep="\t"))->x HeatBrk<-seq(5,25,2.5) MyCol= gray((7:0)/7) library(fields) image.plot(x, col=MyCol, breaks=HeatBrk, legend.shrink=0.3) dev.copy(device=pdf, file="HEAT4!.pdf", height=8, width=8) dev.off() There are a few things that I would like to do that I

Hello everyone, Using the following script I generated a heatmap for my matrix with image.plot from the fields package: library(fields) as.matrix(read.table("Matrix.txt", sep="\t"))->x #on left: labels are: Side<-as.character(x[1,2:ncol(x)]) length(Side)->nS #on bottom, labels are: Bot<-as.character(x[2:nrow(x),1]) #remove first row and column

http://r.789695.n4.nabble.com/file/n4630788/GOF_CGIK.R GOF_CGIK.R http://r.789695.n4.nabble.com/file/n4630788/RESIDSNEWr.csv RESIDSNEWr.csv In order to save place, I attach the data and the R code, for which I have 2 questions. 1/ I cannot convert successfully the data frames with names "first" and "second" in numeric format. They participate here:

Hi everyone, I was wondering if there was a simple way to assign a color to a cell based on value in a data frame and return the cell as an image? For example, if the value is >1, then blue, if between 1 and 2, green, if between 2 and 3, yellow, etc. I tried using a heatmap function but I was hoping there was an easier way to do this. Thanks, Sumukh

Hi all, I'm trying to build a package on Windows 7 (64 bit) and although R cmd build worked fine and I got pkg.tar.gz with no errors, but when I tried doing R CMD check everything turns out ok except for the warning: "checking whether package 'pkg' can be installed ... ERROR. Installation failed." It then refers me to the error file "00install.out" which reads as

Thanks Dimitris!!! That's much clearer now. Still have a lot of work to do this weekend to understand every bit but your code will prove very useful. Cheers, Aziz -----Original Message----- From: Dimitrios Rizopoulos [mailto:Dimitris.Rizopoulos at med.kuleuven.be] Sent: May 12, 2006 4:35 PM To: Chaouch, Aziz Subject: RE: [R] Maximum likelihood estimate of bivariate

Hi Group, I have a matrix, and I would like to replace numbers less than 0 by the smallest minimum number. Below is an small matrix, and the loop I used. I would like to get suggestions on the "R way" to do this. Thanks, Juliet # example data set mymat <- structure(c(-0.503183609420937, 0.179063475173256, 0.130473004669938, -1.80825226960127, -0.794910626384209, 1.03857280868547,

I would really like some help with understanding the panel function, in zoo. Thank you. R 15.1 and zoo 1.7-7. library(zoo) x = seq(0,3*pi,length.out=100) y = sin(x) zobj = zoo(y, x) ########################################################### ## EXAMPLE 1 - GLOBAL ARGUMENT ## This panel function works ## But, it relies on mycol, which is a global variable

Hola, Por si lo quieres con colores rellenando cada punto: #---------------- library(data.table) library(lattice) dat <- read.table("pba.csv", header=TRUE, dec=",", as.is=TRUE) row.names(dat) <- NULL dat <- as.data.table(dat) dat$mycol <- ifelse(dat$sol =="ControlAE", "red", dat$sol) dat$mycol <- ifelse(dat$mycol

This is probably easy for experienced users but I could not find a solution. I have several R scripts that process several columns of a dataframe (several dataframes and columns actually, but simplified for my question). References such as: myDF$myCol are all over. I like to automate this for other dataframes and columns by defining a reference only once in the beginning of the script. One

Dear Jim, Here is again exactly what I did and with the output of Rprof (with this reduced dataset and with a simpler function, it is here much faster than in real life). Thanks you again for your help! ## CODE ## mydata1<- structure(list(species = structure(1:8, .Label = c("alsen","gogor", "loalb", "mafas", "pacyn", "patro",

Hi All, I'm having a problem with barplot: mydata [1,] 2 108 0 0 0 1 3 0 0 0 0 0 7 18 3 4 8 20 26 20 19 7 1 1 mycol = c(rep('yellow', 2), rep('white', 3), rep('orange',2), rep('white', 5), rep('orange',3), rep('red',9)) barplot(mydata, col = mycol) gives me an uniformly yellow barplot. How do I solve this? bw Federico

Dear users, I have a double for loop that does exactly what I want, but is quite slow. It is not so much with this simplified example, but IRL it is slow. Can anyone help me improve it? The data and code for foo_reg() are available at the end of the email; I preferred going directly into the problematic part. Here is the code (I tried to simplify it but I cannot do it too much or else it

I want to get a lighter shade of a color...I have a lot of colored objects and want each one printed as a foreground against a slightly lighter background. I thought I could try something like changing the alpha channel by first converting it to rgb. But prior to trying that, I'm stuck with how to get the color after converting using col2rgb() to be interpreted again as a color, rather than

Hi: In lattice, how does one handle separate graphical behavior for two different factors? In the xyplot below, the objective is to use the levels of one factor to distinguish corresponding shapes and colors, and the levels of the other factor to perform level-wise loess smooths. # Illustrative data: d <- data.frame(time = rep(1:8, each = 6), val = rnorm(48), gp1 =

Dear R users, I am currently trying to create my first personnal function and use it with the apply function. The purpose of this function is to create a vector summarizing the number of levels in a given selection of data.frame columns. I tried to transpose the indexation method used by the nlevels function but it doesn't seem to work. I did not find anything uesful in the archives so

Dear List, I'm trying to generate a simple heatmap that has each row and column separated by a black line. However, for some reason this only happens for the first and last color. The middle color in my colorpanel() command has an addition horizontal and vertical line that I would like to get rid off. Any suggestions? #my code below my.matrix <- cbind(func.1 =

> Dear expeRts, > > Currently, my colors are as follows: > mycol <- > c("blue1","blue2","blue3","blue4","black","yellow4","yellow3","yellow2","y > ellow1") > heatmap(snp, Rowv=NA, Colv=NA, col=mycol) > > However, I would like to have the following colors: > bright blue ->

I am recoding some data. Many values that should be 1.5 are recorded as 1-2. Some example data and my solution is below. I am curious about better approaches or any other suggestions. Thanks! # example input data myData <- read.table(textConnection("id, v1, v2, v3 a,1,2,3 b,1-2,,3-4 c,,3,4"),header=TRUE,sep=",") closeAllConnections() # the first column is IDs so remove

I need help with using graphics in Word 2007 that will later be converted into a pdf document.? I have tried several formats and found that?I get the best quality of graphics using .wmf, .eps format, but when I convert it to .pdf I get a bunch of lines across the figures.? I also tried .tiff and .png but they give me much lower quality.? The best quality that converts to pdf appears to be