search for: m1b20

Hello! I don't know if there is some R-package able to associate ontology to a long list of GeneBank Name (a txt-tab file or an XML file), i.e. I would as output a formatted file with 4 columns (1:GeneBank Name 2,3,4:ontology). I know that I have to perform a mapping of genes, I got a look on AnnBuilder pkg, but I 've not idea from where to start. Some suggestion? Thanks in advance!

...-- > +---------------------------------------------------------------------------+ > | Robert Gentleman phone : (617) 632-5250 | > | Associate Professor fax: (617) 632-2444 | > | Department of Biostatistics office: M1B20 | > | Harvard School of Public Health email: rgentlem at jimmy.dfci.harvard.edu | > +---------------------------------------------------------------------------+ >

...-- > +---------------------------------------------------------------------------+ > | Robert Gentleman phone : (617) 632-5250 | > | Associate Professor fax: (617) 632-2444 | > | Department of Biostatistics office: M1B20 | > | Harvard School of Public Health email: rgentlem at jimmy.dfci.harvard.edu | > +---------------------------------------------------------------------------+ >

I'm new to this site so I hope this isn't too naive a problem. I'm trying to use the permax function with a data frame containing gene expression measurements taken from 79 microarray experiments with >3000 genes per array. The data contains missing values and every time I use permax with the data frame I get the error: NA/NaN/Inf in foreign function call (arg 1) Could anyone

Dear R-users, I'm finding for a R-package concerning graphs. Is there some kind of that package? I've a set of correlation coeffients between several variable and I wish to built a graph to link variables correlated. Many thanks. Best, Vito ===== Diventare costruttori di soluzioni "The business of the statistician is to catalyze the scientific learning process." George

Hello, I am using R 1.7.1 on a Redhat Linux machine, version 7.3. The following works fine: setClass("ok", representation( "A" = "matrix", "Cmatrix" = "matrix")) new("ok", "A" = diag(4), "Cmatrix" = diag(4)) But the following doesn't work: setClass("notok", representation(

Hello, I don't see how to add a method to a class. I can add "slots" (and retreive them by : myObject at slot1) but not methods, for example accessor for these slots and others functions. I've read the "methods" library documentation but I can't figure out how to do this. Thanks for any help/tips Vincent

Hello, Could someone please tell me what I am thinking about incorrectly: f <- function(y) { g <- function(x) x + y g } In the following, I get what I expect based on my understanding of lexical scoping: (f(1))(3) # 4 (f(2))(3) # 5 But now, fs <- lapply(c(1, 2), f) fs[[1]](3) # 5 (Why not 4 ?) fs[[2]](3) # 5 Checking the environments of these functions, I see that

I have the following problem. I have an automatically generated named list with "stringified" names: a <- list("A"=..., "B"=..., "C"=..., ) then I want to refer to the elements of the list, stored as an vector of names: nn <- c("A", "B", "C"), so that I could get list elements like a$nn[1], a$nn[2], etc. Obviously it

Dear R-helpers: I want to calculate area under a Receiver Operator Characteristic curve. Where can I find related functions? Thank you in advance Xiao

R Users: After installing Bioconductor, RSXML and all the relevant Win32 DLLs (libxml2, zlib, iconv), I receive the following error message when using pm.getabst() Error in xmlRoot(absts) : no applicable method for "xmlRoot" I receive this when using the example from help(pm.getabst). Downloading the target XML file, parsing it with xmlTreeParse and applying xmlRoot returns no

Dear all, I am trying to write a package using formal methods and classes from the methods package. I have not been able to get the package to pass rcmd check without warnings, because rcmd check does not recognize my generic functions as code objects and therefore queries why they have documentation entries. I have isolated the problem in a very small trivial example which I give below. I

Hi everyone, There is no mention in ?new.env (R-1.6.0) of what the effect of setting the hash argument of new.env() actually does. What does it mean in performance terms to say that "the environment will be hashed"? Thanks, Jonathan. -- Jonathan Rougier Science Laboratories Department of Mathematical Sciences South Road University of Durham

I'm using R 1.8.1 (Win32, Linux) and have some difficulties using validation functions for S4 classes. The problem is if I specify a validation function with setValidity("myclass", validate.myclass) object validation is only performed when I create an instance using new("myclass"), or when I explicitly call validObject(x) where x is of class "myclass", of

Hi, all-- I wanted to start a (new) thread on R speed/benchmarking. There is a nice R benchmarking overview at http://www.sciviews.org/other/benchmark.htm, along with a free script so you can see how your machine stacks up. Looks like R is substantially faster than S-plus. My problem is this: with 512Mb and an overclocked AMD Athlon XP 1800+, running at 588 SPEC-FP 2000, it still takes me