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Hi, I'm interested in using mtext(), but with the option of having multiple colors in the same line of text. For example, creating a line of text where: Red is red and blue is blue How do you create a text argument that lets you do this within mtext()? Thanks, Andrew MGH Cancer Center [[alternative HTML version deleted]]

I've found RColorBrewer useful for its qualitative palettes, but wished that it could generate more than 12 qualitative palettes (e.g. with Set3). Any suggestions for alternative color palette generators that can handle e.g. 18 distinctive colors? (I'm aware of using rainbow(), but this doesn't generate enough distinct colors when the number of palettes is large). Thanks, Andrew

I have the following data: > dataset[2,"Sample.227"] [1] NaN 1558 Levels: -0.000 -0.001 -0.002 -0.003 -0.004 -0.005 -0.006 -0.007 -0.008- 0.009 ... 2.000 However, I'm not sure why this expression is coming back as FALSE: > dataset[2,"Sample.227"]=="NaN" [1] FALSE Similarly: > dataset[2,"Sample.227"]==NaN [1] NA It seems that since

I have a matrix of characters (actually numbers that have been read in as numbers), and I'd like to remove the NA. I'm familiar with na.omit, but is there an equivalent of na.omit when the NA are the actual characters "NA"? Thanks, Andrew [[alternative HTML version deleted]]

I have the following csv file: name,x,y,z category,delta,gamma,epsilon a,1,2,3 b,4,5,6 c,7,8,9 I'd like to create a numeric matrix of just the numbers in this csv dataset. I've tried the following program: sample.data <- read.csv("sample.csv") numerical.data <- as.matrix(sample.data[-1,-1]) However, print(numerical.data) returns what appears to be a matrix of

Pardon my ignorance, but is there a difference in cor.test between exact=FALSE and exact=NULL when method=spearman? Take for example: x<-c(1,2,2,3,4,5) y<-c(1,2,2,10,11,12) cor.test(x,y, method="spearman", exact=NULL) This gives an error message, Warning message: Cannot compute exact p-values with ties in: cor.test.default(x, y, method = "spearman", exact = NULL)

Hi, I've been using R in Windows but am now starting to use it more often in the UNIX environment. In Windows, I'm used to the text provided by the user appearing in red, and the output from R appearing in blue. Is there a way to achieve this in UNIX? Thanks, Andrew [[alternative HTML version deleted]]

I have been having some difficulty instaling RWinEdt 1.7-5 I've tried a couple methods, including installing the package from a zip file that I've downloaded locally. It installs fine, but then I get an error message with library(RWinEdt) as follows: > library(RWinEdt) Error in getWinEdt() : WinEdt is not installed properly. Either reinstall WinEdt or install R-WinEdt manually as

This is a dumb question, but I'm having trouble finding the answer to this. I'd like to do the following: x<-"asdf" and then have the object x.y become automatically converted/represented as asdf.y (sort of akin to macro variables in SAS where you would do: %let x=asdf and do &x..y) What is the syntax for having x represented as "asdf" in x.y ? Thanks,

I've been using heatmap(), hclust(), and cutree(), and I'm trying to figure out the column labels of the left (as opposed to the right) cluster. Using cutree(x, k=2), I get two clusters labeled 1 and 2. How do you figure out if cluster 2 is the one associated with the left cluster on the heatmap (instead of manually going to the heatmap)? Thanks, Andrew Andrew Yee, MD MGH Cancer Center

Hi, I'm interested in using apply() with t.test() on a data.frame. Specifically, I'd like to use apply() to do the following: t.test(raw.sample[1,alive],raw.sample[1,dead]) t.test(raw.sample[2,alive],raw.sample[2,dead]) t.test(raw.sample[3,alive],raw.sample[3,dead]) etc. I tried the following, apply(raw.sample,1,function(x) t.test(raw.sample[,alive],raw.sample[,dead])) but it gives