similar to: Finding out about objects and classes

Hi Thanks once again for your help, I do appreciate it..... however.... Here is what I get with your test.... (under tcsh - i normally use bash, but I will keep everything the same) users/mwatson> env http_proxy=http://wwwcache.bbsrc.ac.uk:8080/ R >options(internet.info=0) >update.packages() trying URL `http://cran.r-project.org/src/contrib/PACKAGES' unable to connect to

OK, I really am struggling with this one! Forgive me if I am being stupid.... I am running R 1.7.1 on Suse Linux 8.1. I connect to the internet through a proxy so I have: IAHC-LINUX03:~ # echo $http_proxy wwwcache.bbsrc.ac.uk:8080 IAHC-LINUX03:~ # echo $HTTP_PROXY wwwcache.bbsrc.ac.uk:8080 just in case ;-) SO, i go into R and I get: >

Hi First a simple question to do with plot(). How do I change the x-axis labels on a plot? For example, I am plotting each row of a matrix, and I want each row to be a line on my graph. Simple really. Eg: plot(sg[1,], type="l") When I do this, the x-axis is labelled 1:38, as I have 38 columns in my matrix. When I do: plot(sg[1,order(sg[1,])], type="l") Ideally I would

Hi I can't get R to connect to the internet. I am running R 1.7.1 on Windows XP and whenever I try to download packages etc from within R using the internet, it fails. OK so I am behind a firewall and use a proxy server.... SO, if I go to my MS-DOS prompt and type: RGui.exe --internet2 everything works.... BUT i can't set up a shortcut for this as Windows (I hate Windows) complains

Hi When I use plot(hclust(dist..)...)...) etc to create a dendrogram of a hierarchial cluster analysis, I end up with a vertical tree. What do I need to do to get a horizontal tree? Also, my users are used to seeing trees who's leaves all "end" at the same place (eg. Like in minitab). Is this possible in R? Thanks Mick Michael Watson Head of Informatics Institute for Animal

Quite a simple one really! When I run boxplot(), the labels on the X axis are horizontal, and I want them vertical. So I did: par(las=3) boxplot(...) And my labels just aren't there anymore.... Any help???

Hi A simple question again, but I can't find it by google-ing R-help. Quite simply, I want to read in the contents of a number of files, using read.table, and assign the results to elements of a vector/array/list/whatever. I want it so that, if my vector/array/whatever is "pos", that pos[1] will give me the first data frame, pos[2] will give me the second etc... Kind of basic

Hi Running R v2.0 on SuSe linux 8.2. I'm trying to build a package (which built perfectly on Windows...) on Linux, and I ran: R CMD check mypackage I got: * checking mypackage-maual.tex ... ERROR LaTeX errors when creating DVI version This typically indicates Rd problems OK, there are no problems with my Rd - I got 3 warnings but they were all expected, and the whole package builds find

Hi I have seen a few posts to this list regarding problems accessing the x11() device over cgi - namely, when trying to create a graphic using the jpeg() function, everything is fine from the command line but it won't work over cgi, producing the error: "Unable to open connection to X11 display" Has anyone actually solved this particular problem satisfactorily? Please reply

Hi We have touched on this before, but I don't think I quite got it right. So I have a list, each element of which is a a vector of 2 numbers: > l2 $cat000_a01 [1] 0.3429944 4.5138244 $cat000_a02 [1] 0.1929336 4.3064944 $cat000_a03 [1] -0.2607796 4.1551591 What I actually want to convert this into is a matrix with the names (cat000_a01 etc) as row names, the first element of each of

OK, dumb question, and it is probably in the docs somewhere, but after 12 months working with R and quite a while looking at the docs, I still don't know (or have forgotten) how to replace all NA values in a matrix at once with some other value. I can do it column by column using is.na(), but I can't figure out how to do it for the whole matrix. My apologies, I am ashamed ;-) Michael

Hi Sorry to ask such a well oiled question, but even with multiple google hits I don't think this has been answered very well. It's all well and good doing a sort of a data frame on multiple columns when you know in advance which columns you want to sort on, but what about when the names of the columns you wish to sort on are in a vector? At the minute I'm messing about with

Hi Sorry to ask such a basic question. I have a list, each element of which is a vector of two values. What I actually want is a matrix with two columns, and one row per element of the list. Obviously I have tried as.matrix(), and as.vector() but I didn't expect the latter to work. I feel so lame asking this. Any suggestions? Mick

Hi Sorry to revisit an old problem, I seemed to solve this in 2004, only for it to resurface :-S I am trying to plot a heatmap, and I don't want the columns of my matrix re-ordered. The function doesn't seem to behave as the help would have you believe: a <- matrix(rnorm(100),nr=20) a.d <- dist(a) a.hc <- hclust(a.d) a.de <- as.dendrogram(a.hc) # columns are re-ordered

Hi Now a more theoretical question. I have two correlation matrices - one of a set of variables under a particular condition, the other of the same set of variables under a different condition. Is there a statistical test I can use to see if these correlation matrices are "different"? Thanks Mick

Hi I've been reading the help for by and aggregate but can't get my head round how to do this. I have a data frame - the first three columns are replicate measurements, then the next 3 are replicates etc up to 36 (so 12 variables with 3 replicate measurements each). I want to compute the mean for each of the 12 variables, so that, for each row, I have 12 means. A grouping variable

Hi I'm seeing some "odd" behaviour with cbind(). My code is: > cat <- read.table("cogs_category.txt", sep="\t", header=TRUE, quote=NULL, colClasses="character") > colnames(cat) [1] "Code" "Description" > is.factor(cat$Code) [1] FALSE > is.factor(cat$Description) [1] FALSE > is.factor(rainbow(nrow(cat))) [1]

Hi I have two lots of numbers which I would like to histogram using the hist() function. For comparative reasons, I want them to be on the same scale, which I can use the xlim and ylim options to achieve. However, having them on the same scale is meaningless unless they have the same "breaks". Consulting the documentation, there are 4 ways of defining the number of breaks, only one

Hi This is a difference between the way matrices and data frames work I guess. I want to replace the NA values in a data frame by 0, and the code works as long as the data frame in question actually includes an NA value. If it doesn't, there is an error: df <- data.frame(c1=c(1,1,1),c2=c(2,2,NA)) df[is.na(df)] <- 0 df df <- data.frame(c1=c(1,1,1),c2=c(2,2,2)) df[is.na(df)] <-

Hi Hopefully this one isn't in the manual or I am about to get shot :-S One of my colleagues wants a slightly strange graph. We basically have a data matrix, and she wants to plot, for each row, the values in the row as points on the graph. The following code draws the graph just fine: plot(row(d)[,3:9],d[,3:9]) So as there are 12 rows in my matrix, there are 12 columns of points, which