similar to: Storing graphics output in PNG format.

Dear All, I am trying to install R 2.7 on my openSUSE 10.3. I have faithfully followed instruction at http://cran.r-project.org/bin/linux/suse/ReadMe.txt. I have downloaded all the RPMs but still R complains about: libtcl8.4.so is needed by R-base-2.7.1-6.1.i586 I searched for this library and found a one, tcl-8.4.15-22.i586.rpm at openSUSE distribution site and installed. But R still complains

Dear All, It is not a typical R question (though I use R for this) but I thought someone will help me. For the list of P values, I have calculated FDR using p.adjust() in R (bioconductor). But my FDR values are same for all the P values. When do we get same FDR values? Does the smallest P values should less than 1/N? (where N is the number of P values) Thanks in advance. Kind regards, Ezhil

Dear All, I have large matrix (46000 x 11250). I would like to do the linear regression for each row. I wrote a simple function that has lm() and used apply(mat,1,func). The issue is that it takes ages to load the file and also to finish the lm. I am using LINUX 64 bit with 32G mem. Is there an elegant and fast way of completing this task? Thanks in advance. Kind regards, Ezhil

Dear All, I am using the following commands to do the scatter plot of two vectors, say X and Y. plot(X,Y, col="blue") abline(a=1,b=1, col="red") abline(a=-1,b=1, col="green") I would like to split the scatter plot into 3 part with 3 different colors: (i) points lies between 2 lines, (ii) points above line 1, and (iii) points below line 2. I am struggling to do

Dear All, I have a correlation matrix of size 100 x 100 and would like to extract the diagonal matrix from it. I have used the for loop to store tha correlation values of the diagonal matrix. Is there a 'R way' of doing this? Thanks in advance. Kind regards, Ezhil

Dear All, I have a matrix of size 10000 x 50. I would like to calculate all possible pair-wise correlation coefficient (5x10^7 combinations) using cor(). How can I efficiently calcualte and save the result in a matrix? Thanks in advance. Kind regards, Ezhil

Dear All, I have matrix (50000 X 60) of subjects and their responses to a set of questions. All responses are classified into categories (500). I would like to average all subject's responses for each category. I wrote a code using a for loop but is not working. Could please tell me what's wrong with the code? I guess, there is a elegant R way of doing the same thing. Thanks in advance.

Dear all, I am having a data for 2 different treatments with different time points. So, I used the following code to plot the boxplot and also to do anova. T11 <- c(280, 336, 249, 277, 429) T12 <- c(400, 397, 285, 407, 313) T13 <- c(725, 373, 364, 706, 249) T21 <- c(589, 257, 466, 248, 913) T22 <- c(519, 424, 512, 298, 907) T23 <- c(529, 479, 634, 354, 1015) obs <- c(T11,

Hi, I have a matrix HR(9x27). I would like to make a single vector with elements: t(HR[,1]) followed by t(HR[,2]) and then t(HR[,3] ... etc. Is there any neat way of converting this matrix into a vector rather doing something like c(t(HR[,1]), t(HR[,2]), t(HR[,3]) ..)? Thanks in Advance. Kind regards, Ezhil ____________________________________________________________________________________

Dear All, I have two matrices A (40 x 732) and B (40 x 1230) and would like to calculate correlation between them.  I can use: cor(A,B, method="pearson") to calculate correlation between all possible pairs. But the issue is that there is one-many specific mappings between A and B and I just need to calculate correlations for those pairs (not all). Some variables in A (proteins, say p1)

Dimitris Rizopoulos wrote: > look at ?rowMeans; you can also use "apply(mat, 1, mean)" but > rowMeans() is better. By my reading of the question, this is not what Ezhil wants. He said: ``I have a 992 x 74 matrix. I would like to form a new matrix by averaging each 4 rows from the original one.'' I.e. he wants (I think) the first row of the new matrix to be the

I am trying to make horizontal violin plots. I have tried both vioplot and simple.violinplot, but both of them seem to not be willing to take the horizontal option. Is this correct, or am I just bungling it somehow? For instance, for vioplot (from the example shown, with the horizontal modification): > vioplot(bimodal,uniform,normal, horizontal=TRUE) Error in median(data) : need numeric data

Hello everyone, I wanted to know if it was possible to change the color of certain leaves in a hclust object in order to make my graph more readable. I know I can color certain groups but I would like to enter a vector telling the plot function which leaves to color in which color. Thanks in advance, William.

Dear R users and developpers, My question is adressed to both of you, so I choose R-help to post it. Are there any plans to jazz up the main R website : http://www.r-project.org The look it have now is the same for a long time and kind of sad compared to other statistical package's website. Of course, the comparison is not fair, since companies are paying web designers to draw lollipop

Hi all, I'm trying to superimpose a rchisq density line over a histogram with something like: hist(alnlength) lines(density(rchisq(length(alnlength), 4)),col="red") But the rchisq line won't appear anywhere, Anyone knows what I am missing here? Thanks in advance, Albert.

Hi, I have a couple of questions: * would it be possible to add more information on the history, for example the number of the command and a timestamp. With the number of command, one could do some stuff like in a terminal to recall a specific command : $ !45 and with the timestamp, one could imagine to ask for commands that were typed in a given interval of time. For example : R>

Hi All, This may be trivial in R but I have been trying with out any success. I have a list of 100 elements each having a sub list of different length. I would like to write the list to a ASCII file. I tried with write.table(), after converting my list to a matrix. Now it looks like Robert c("90", "50", "30") John c("91", "20",

Folks, I was drawn to R, like many others, partly for the opportunity to draw nice, colorful graphs (occasionally ones with meaning, too :-) ). I am still quite a newbie to R. As such, I have been trying to understand the code for the graphics on the home page (the ones from the 2004 contest -- the dendrogram, the cluster plot with different coloured circles, etc.) I was wondering whether anyone

Hi All, I have a vector of length 48, something like: 0 0 1 1 0 0 0 0 0 0 0 0 0 0 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 I would like to print (reformat) this vector as: 001100000000001111111111111111111111111111111111 by simply removing the spaces between them. I have been trying with many option but not able to do this task. I would greatly appreciate your

Hi, I'm trying to build a simple R package 'helloWorld' with just one function that prints 'hello World' on the C side. I agree that it is completely useless, but I just start mixing R and C. My C file is as follows : #include <stdio.h> void helloWorld() { printf("hello world !\n") ; } When I call it from R, here is what happens : R>