similar to: Using permax with Data Frame Containing Missing Values

Hello: I am using R 1.9.1 under windows. I am interested in the permax package for analyzing DNA microarray data. I see, from install.packages(), that the windows binary version is 1.2.1, but that source code exists for version 2.2. Version 2.2 has much more functionality, especially for clustered data. So, I wonder whether anyone has made a binary windows release for version 2.2 of this

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 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!

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 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

Hi, I need some help with the interpretation of B statistics generated by eBayes in the limma package. I want to compare gene expression in three groups of Affy samples. The expression set has been imported from GeneSpring using GSload.expBC and a linear model fitted to the data using a design based on the three groups (6, 5, and 5 samples in each group, respectively). I have then made 3

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, 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

Hi, After updating R-2.12 on the Bioconductor build system about 1 week ago (we update R every 4-6 weeks for our devel builds), we've started to see something never seen before on Windows: for some BioC packages, 'R CMD build' would produce no output at all (0 byte) and, of course, no source tarball. Even though, the code returned by the command is 0! See an example of this is here:

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

Fixed 'maxiter' in the help file. Thanks. Please give the original source of that dataset. That dataset is a tiny sample of GUSTO-I and not large enough to fit this model very reliably. A nomogram using the full dataset (not publicly available to my knowledge) is already available in http://biostat.mc.vanderbilt.edu/tmp/bbr.pdf Use lrm, not lrm.fit for this. Adding maxit=20 will

Hi All: Package TSERIES is stated to depend on MVA. However, there is no MVA package to be found under the list of package sources. Best wishes, ANDREW tseries: Package for time series analysis Package for time series analysis with emphasis on non-linear and non-stationary modelling Version: 0.7-6 Depends: ts, mva, quadprog Date: 2001-08-27 Author: Compiled by Adrian

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

> On Sep 14, 2017, at 12:30 AM, Bonnett, Laura <L.J.Bonnett at liverpool.ac.uk> wrote: > > Dear all, > > I am using the publically available GustoW dataset. The exact version I am using is available here: https://drive.google.com/open?id=0B4oZ2TQA0PAoUm85UzBFNjZ0Ulk > > I would like to produce a nomogram for 5 covariates - AGE, HYP, KILLIP, HRT and ANT. I have

Dear all, I am using the publically available GustoW dataset. The exact version I am using is available here: https://drive.google.com/open?id=0B4oZ2TQA0PAoUm85UzBFNjZ0Ulk I would like to produce a nomogram for 5 covariates - AGE, HYP, KILLIP, HRT and ANT. I have successfully fitted a logistic regression model using the "glm" function as shown below. library(rms) gusto <-

Dear All, I am writing a project that will involve me writing code in R and php. i would appreciate if someone guide me on how to integrate R to php i wish to write an upload system in php that R will use and process and post back the result on php. thanks in advance ================ Worthy agent of Light ================ Jules Irenge MSc Student University of Liverpool [[alternative HTML