similar to: R function found in two packages !

Hi, I am a little lonely as R users in my group. So, I would like to know which editor is the most used in the R community. This post is some kind of survey. Personally, I use Emacs with ESS, It permits to : - open more than one R session - split the emacs editor as many part as you want. - use a lot of keybindings. ... I also tried Rkwards, Scilab (windows), JGR etc... but they are not

Hi, I am looking for a R package which is capable to process and analysis pictures of tissues (stained) in an automatic way. I had a look on biops and EBImage (Bioconductor) but they are not automatic... Did you already use/know a such package ? Thanks, - Martial _________________________________________________________________ Tchattez en direct en en vidéo avec vos amis !

Hello, I 've just re-installed R 2.9.0 on ubuntu 9.04. I do not understand why I am unable to use simple device function such as jpeg(), png()... > png() Error in X11(paste("png::", filename, sep = ""), width, height, pointsize, : unable to start device PNG In addition: Warning message: In png() : no png support in this version of R > capabilities() jpeg

Hi, I am looking for a R package to draw 3d plot. But not in a static way like scatterplot3d or stuff like that. I would like to make rotate the plot, to zoom/unzoom etc..., actually to render the graph 'dynamic'... (for the biologist and bioinformatician, a R package which permitts to reproduce what pdb viewer does). Does a Way exist to do something like that in R ? Thanks,

Dear All, I would like to use the 'split' function on the dataframe elements contained in a list L. For example : > (df <- data.frame(cbind(c(rep('A',2), rep('B',2)), rep(1:4)))) X1 X2 1 A 1 2 A 2 3 B 3 4 B 4 > (L<-split(df, df$X1)) $A X1 X2 1 A 1 2 A 2 $B X1 X2 3 B 3 4 B 4 Now, I would like to split EACH data frame, ie, according to

Hello, Do you know a R implemented normality test like the shapiro test but more suitable for large data set ? Thanks, _________________________________________________________________ Découvrez toutes les possibilités de communication avec vos proches [[alternative HTML version deleted]]

Hi, when running the following on a fresh R, library("IRanges") annotation showMethods("annotation") Biobase:::annotation showMethods("annotation") I get (see the "^^^^^" marked output at the bottom): > library("IRanges") Carico il pacchetto richiesto: 'IRanges' The following object(s) are masked from package:base :

Hi How to access the values in the output that is an object of S4 type. I tried to access using subset ( [ ] ) but it is not allowed. Any clue?? Thanks -- Fahim #My code is as follows: require(IRanges); query <- IRanges(c(1, 4, 9), c(5, 7, 10)) subject <- IRanges(c(2, 2, 10), c(2, 3, 12)) findOverlaps(query, subject) Output of find overlap function is: ------------------ 1>

Hi I'm missing something here but I cannot figure out what. What I can see is that the same code works when I load it via source(...) yet fails when I execute it after loading the package I have built (which includes the code. Below is a transcript of my R session. First I load the code from a file, using source(). Then I execute it fine. Then I remove the function object, I load the

Thank you Michael Dewey. Can you please send me the email id for Bioconductor. regards Pijush On Fri, Dec 29, 2017 at 5:20 PM, Michael Dewey <lists at dewey.myzen.co.uk> wrote: > Dear Pijush > > You might do better to ask on the Bioconductor list as IRanges does not > seem to be on CRAN so I deduce it is a Bioconductor package too. > > Michael > > > On

Dear Sir, I have been using R for a long time. But recently I have faced a problem when installing the Bioconductor package named "methyAnalysis". Firstly it was require to update my older R (R version 3.4.3 (2017-11-30)) in to newer version. That time I have also updated the RStudio software. After that when I have tried to install the package named "methyAnalysis". It

Dear Pijush You might do better to ask on the Bioconductor list as IRanges does not seem to be on CRAN so I deduce it is a Bioconductor package too. Michael On 29/12/2017 07:29, Pijush Das wrote: > Dear Sir, > > > > > I have been using R for a long time. But recently I have faced a problem > when installing the Bioconductor package named "methyAnalysis".

R CMD build fails with recent R-devel because it is looking for texi2dvi in /usr/local/bin, but on this system, MacTex has installed it in /usr/bin. $ R CMD build IRanges * checking for file 'IRanges/DESCRIPTION' ... OK * preparing 'IRanges': * checking DESCRIPTION meta-information ... OK * cleaning src * installing the package to build vignettes * creating vignettes ... ERROR

Hi, S4 method dispatch can be very slow. Would it be reasonable to cache the most recent dispatch, anticipating the next invocation will be on the same type? This would be very helpful in loops. fun0 <- function(x) sapply(x, paste, collapse="+") fun1 <- function(x) { paste <- selectMethod(paste, class(x[[1]])) sapply(x, paste,

Getting this oops on one of our production servers pretty much hangs the server. Do we have a corrupted Journal? how would ewe rebuild it? Any idea how to recover from it? Assertion failure in journal_bmap() at journal.c:636: "ret != 0" invalid operand: 0000 CPU: 0 EIP: 0010:[journal_bmap+70/96] Not tainted EIP: 0010:[<c016b646>] Not tainted EFLAGS: 00010282

R experts, Hello, I am trying to sample a vector 1:40 without replacement such that no element in the new vector is within 7 units of either of its immediate neighbors. This is part of a larger program I am working on. The following code works well about 65 % of the time (14/40). The problem I encounter happens when the last element remaining to be sampled from the vector STRATA is within 7

Dear All, I am trying to finding overlapping regions in two diff datasets for that I am using IRanges. But I am getting an error in the process of doing the overlap. Advance thanks df3.rl<-RangedData(IRanges(start=df3$V3,width=1), + space=df3$start) Error in .normargSEW0(start, "start") : 'start' must be a numeric vector (or NULL) Kumar [[alternative HTML version

Hi Martin, On 11/29/2017 10:46 PM, Martin Morgan wrote: > On 11/29/2017 04:15 PM, T?th D?nes wrote: >> Hi, >> >> A benchmarking study with an additional (data.table-based) solution. > > I don't think speed is the right benchmark (I do agree that correctness > is!). Well, agree, and sorry for the wording. It was really just an exercise and not a full

On 11/29/2017 04:15 PM, T?th D?nes wrote: > Hi, > > A benchmarking study with an additional (data.table-based) solution. I don't think speed is the right benchmark (I do agree that correctness is!). For the R-help list, maybe something about least specialized R knowledge required would be appropriate? I'd say there were some 'hard' solutions -- Michael (deep

Using the IRanges package from Bioconductor and somewhat recent R-2.9.1. ov = IRanges(1:3, 4:6) length(ov) # 3 seq(along = ov) # 1 2 3 as wanted seq_along(ov) # 1! I had expected that the last line would yield 1:3. My guess is that somehow seq_along don't utilize that ov is an S4 class with a length method. The last line of the *Details* section of ?seq has a typeo. Currently it is