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Hello, I want to use expresso for preprocessing the hgu133a-spikein data from affycompII. But there is an error: > library(affy) > path <- "z:/Microarray/hgu133a-spikein/rawdata" > celFile <- list.celfiles(path=path,full.names=TRUE); > affyBatch <- ReadAffy(filenames=celFile[1:6]); > eset1 <-

Hello, A newbie to R. I am trying to use the exonmap package in R. According to the docs, the xmapDatabase() command should read the config file with all the connection parameters and connect to the DB. But i get the error shown below.... > xmapDatabase("Human") Error in mysqlNewConnection(dbDriver(drv), ...) : RS-DBI driver: (could not connect cagadmin at mysql2.cag.chop.edu on

Hi, I am trying to install RMySql-.0.6.0 to work with WinXP, MySQL 5 and R 2.51. there is no binary for windows on cran-r, so i grabbed RMySql-0.6.0.tar.gz and tried to compile it. I get the following error: * checking for file 'RMySQL/DESCRIPTION' ... OK * preparing 'RMySQL': * checking DESCRIPTION meta-information ... 'sh' is not recognized as an internal or external

Hi all, I need your opinion about using R-Rapache to build a knowlegde base to bioinformatics field. I have copious amount of genotype information (some few million records) and would like to store it in MySQL database. Then, using RMySQL connector I would like to use it for further analysis using R over a web interface. The web interface which I am thnking off, just does not serve the purose of

Hi Matt Your method is the easiest way for me to install the 64-bit R. I followed the directions on your web site and then did the following: R --arch=x86_64 source("http://bioconductor.org/biocLite.R") biocLite(type = "source",lib = "/Library/Frameworks/R.framework/Versions/2.8/Resources/RLib64") I got many errors and warnings which I copied to the attached file.

Hi all, I want to visit MySQL in R use RMySQL package on Windows 2k.I got RMySQL and DBI packages from a cran,but only the package RMySQL is built on MasOS.I extracted both and put them under the folder of "library",started R and typed string as , >require(RMySQL); R told me DBI was loaded,but RMySQL was't loaded because R not found it. Thank very much! along

Neither biocLite nor the GUI menus can install packages on my system. Here is relevant output: > version _ platform i386-pc-mingw32 arch i386 os mingw32 system i386, mingw32 status major 2 minor 11.1 year 2010 month 05 day 31 svn rev 52157 language R version.string R version 2.11.1 (2010-05-31) > source("http://bioconductor.org/biocLite.R") BioC_mirror =

Hi All, I tried to install the package of Rgraphviz in the following two ways successfully: source("http://bioconductor.org/biocLite.R") biocLite("Rgraphviz") install.packages(pkgs="C:/Progra~1/R/lib_download/Rgraphviz_1.24.0.zip", lib="C:/Progra~1/R/R-2.10.1/library", repos=NULL) but when I loaded the package though library(Rgraphviz) or

I've asked a question in the BioConductor list about package management. My solution depends on your answer to the following question. Are installed R packages "relocatable"? I mean relocatable in the same sense that files in a RedHat RPM file might be "relocatable" after compiling (http://www.rpm.org/max-rpm/ch-rpm-reloc.html). This allows one to build a package as the

Hello, Some weeks ago, thanks to you, I managed to install R, to connect to a local MySQL Database and to launch some queries with a script written with Tinn-R. My script is now ok and would like to test it with the "real" database. I did the same installation of R, DBI package and RMySQL package I did on my PC (I wrote everything I did in order to make it easy ...) but when I type

Hi, I did a quick search for other packages that provide the beta binomial distribution and found "rmutil". > install.packages("rmutil") The package has the CDF (pbetabinom) and inverse CDF (qbetabinom) among other functions. HTH, Eric On Wed, Nov 1, 2017 at 7:50 AM, MCGUIRE, Rhydwyn < rmcgu at doh.health.nsw.gov.au> wrote: > Hi there, > > It looks like

Dear list, How can I detect a package is installed or not? If not, then install it. For example, in a script, I want to check the package DESeq is installed or not. If not, then I will using this script to install it. source("http://www.bioconductor.org/biocLite.R") biocLite("DESeq") The pseudo script would be like this: try: library("DESeq") catch:

Why am I seeing the following in R-devel (sept 2, 2006 build) on opensuse 10.1? I'm sure it is something simple I am missing, but I just don't see it (output below). Thanks, Sean > readLines(url("http://www.bioconductor.org/biocLite.R")) [1] "source(\"http://bioconductor.org/getBioC.R\")" [2] ""

To whom it may concern. As I would like to analyse some array data I was keen on downloading the lumi package that depends obviously on hdrcde that is not available for r 2.12.1. I did not find instructions to solve or circumvent this problem. Installing hdrcde by hand did not work either. It was not detected by > (.packages(all.available=TRUE)) if installed in the R library. Thanks Hermann

Hello R experts: I need a developer version of a Bioconductor library. > sessionInfo() R version 3.4.2 (2017-09-28) Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows 7 x64 (build 7601) Service Pack 1 When I try to useDevel it fails. I've removed packages and again loaded but I get the same error message. remove.packages("BiocInstaller")

The warnings from make.packages.html() on the Apple Mac OS X platform can be dealt with as follows: ------------------------------------------------ (1) make.packages.html() uses the function tempdir() and attempts to create a temporary directory in the default location /tmp/ which fails due to the /tmp directory architecture on the Mac. I set up a .Renviron file in my user account

Hi Nguyen, > Subject: [R] install "multtest" and "preprocessCore" packages in > Bioconductor library > Date: Wed, 30 Nov 2011 09:57:36 -0800 > From: UyenThao Nguyen <unguyen at tethysbio.com> > To: r-help <r-help at r-project.org> > CC: uth.nguyen at ucdavis.edu <uth.nguyen at ucdavis.edu> > > Hi All, > > I've tried to

Hello, Thank you for your response. I need to install RankTail package since it contains the beta binomial distribution, CDF and inverse CDF in the usual form which I need to use. However rmutil package contain unusual forms for these functions. So it is easier for me to deal with the forms are contained in RankTail. I tried to install bioconductor package, using the following commands but I

Dear All, I am trying to build a package for a set of functions. I am able to build the package and its working fine. When I check it with R CMD check I get a following warning : no visible global function definition for ‘biocLite’ I have used biocLite to load a user defined library from within a function if that library is not pre-installed