similar to: Scatter Plot in R - Help

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, How can I store hist() or any plot output graphics in PNG format? I tried with bitmap() but not getting the result. Appreciate your help on fixing this. Thanks in Advance. Regrads, Ezhil

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 ____________________________________________________________________________________

Hello, I have been using scatter.smooth and been trying to format my plots and been unable to adjust the line type or color of the smooth curve. When I specify col in scatter.smooth, I can adjust the color of the scatter plot points, but the line always stays black and solid. lty has no effect. When I specify par prior to calling scatter.smooth, col will change the color of the points,

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

Hi, I was wondering if there's a way in R to open a web browser (such as Internet Explorer, or Firefox or whatever). I'm doing some analyses that have associated urls, and it would be nice to have the ability to directly open the relevant page from within R. I was looking at the help for 'url' and I can see I can probably access the information I need and display it in my

Hi, after reading about it in the forum, I tried the Tinn-R editor (in WinXP) running R 2.5.0... nice one! However, I am trying to change the syntax-colouring from the default to my own preferences... and I can do that, but my options don't appear to be saved and get lost when I close Tinn-R. I've searched help menus, and google... and I can't find how to make sure my

I am doing very regular stuff like the following: attach(wtana) fm<- lm(Body.Wt.on.SD1~Heart.Wt, data=wtana) #fm<- lm(wtana$Body.Wt.on.SD1~wtana$Heart.Wt) lrf<- loess(Body.Wt.on.SD1~Heart.Wt, wtana) #lrf<- loess(wtana$Body.Wt.on.SD1~wtana$Heart.Wt) plot(Body.Wt.on.SD1,Heart.Wt) #plot(wtana$Body.Wt.on.SD1,wtana$Heart.Wt) #lines(spline(Heart.Wt,fitted(lrf)), col=2) abline(fm, col=4)

Hi, I have been using 'read.table' regularly to read tab-delimited text files with data. No problem, until now. Now I have a file that appeared to have read fine, and the data inside looks correct (structure etc), except I only had 15000+ rows out of the expected 24000. Using 'readLines' instead, and breaking up the data by tabs, gives me the expected result. I do not

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",

Hi everyone, I have a problem with adding points to scatter plots. The plot is drawn with the scatterplot() function from the car library: scatterplot(data[,2] ~ data[,1], data=data,smooth=F,reg.line=F,xlim=c(0.5,1),ylim=c(0.5,1),ylab="ML",xlab="Freq",cex.lab=1.9,cex.axis=1.8) after that, I draw one line with abline(0,1,col="gray20") which works perfectly fine.

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

I am new and self taught in R, so please bear with me. I want to create two scatter plots side by side. The data set includes measurements from two different countries with 7 treatments over a timeline (x-axis). Problem 1 I want to have each plot to include the data from one of the countries with 7 regression lines of the treatments, but I do no know how to divide the data between them. This is