search for: bioconductor

...packages in zipfiles are not supported". which (according to google's one and only hit) comes from a perl script. Your suggestion (below) to use biocLite hangs the R session, at this point: Running biocinstall version 2.3.9 with R version 2.8.0 Your version of R requires version 2.3 of Bioconductor. trying URL 'http://bioconductor.org/packages/2.3/extra/src/contrib/RCurl_0.92-0.tar.gz' Content type 'application/x-gzip' length 239873 bytes (234 Kb) opened URL downloaded 234 Kb (In this case, R 2.7.2.) We also tried to build RCurl from the tarballs, in DOS window and in Cyg...

No se bien si hacer la pregunta aca, pero en la lista de correo de bioconductor he tenido algunos problemas para hacer la consulta. Por un error actualice R de la version 15.0.3 a la 3.0.2, y ahora no me corren las librerias de bioconductor. Al intentar usar alguna me aparece el mensaje : Your Bioconductor is out-of-date, upgrade to version 2.13 by following instructions at...

Dear all, for a CRAN-package that depends on another Bioconductor-package I find two things annoying and would like to know whether there are some workarounds: 1) Is there some inevitable problem that install.packages does not install uninstalled packages (on which the specified package depends) also from Bioconductor (in the correct version)? 2) In my understa...

I currently set the Bioconductor repository in my .Rprofile using this code (which needs editing for every version number change of Bioconductor): # Choose repositories repos <- structure(c(CRAN="http://streaming.stat.iastate.edu/CRAN", CRANextra="http://www.stats.ox.ac.uk/pub/RWin",...

Hello, I follow the Bioconductor instruction (http://www.bioconductor.org/download <http://www.bioconductor.org/download> ) to install Biocoductor, there have some errors: /usr/lib/R/bin/SHLIB: line 115: make: command not found chmod: cannot access `/usr/local/lib/R/site-library/affyio/libs/*': No such file or director...

I am running the last R version on SuSE 11.1. I installed the Bioconductor environment following the instructions on the web. As a consequence some core packages from Bioconductors were installed. I need to add some more packages. So I tried biomaRt as follows. It does not get installed correctly. Please see the following sequence. Thank you in advance. Maura > sour...

Full_Name: H Deshmukh Version: 2.0 OS: 2000 Submission from: (NULL) (129.174.206.239) Can somebody tell me what is it that i am doing wrong,i was not sure whether to post BioConductor error here or not. Thanks >source("http://www.bioconductor.org/getBioC.R") > getBioC(libName = "all") Running getBioC version 1.2.65.... If you encounter problems, first make sure that you are running the latest version of getBioC() which can be found at: www.bioconduc...

Hi, I am new to R. I am downloaded the installer for R 2.9.1, and that installed just fine. Then I want to install Biocondcutor packages. According to bioconductor website, I input the following commands. > source("http://bioconductor.org/biocLite.R") > bioLite() Error: could not find function "bioLite" What am I doing wrong here? Thanks -- View this message in context: http://www.nabble.com/error-installing-bioconductor-tp248662...

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-r...

...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 = http://www.bioconductor.org Change using chooseBioCmirror(). > biocLite("ALL") Using R version 2.11.1, biocinstall version 2.6.7. Installing Bioconductor version 2.6 packages: [1] "ALL" Please wait... Warning in install.packages(pkgs = pk...

Hi, I been trying to install bioconducter into R using the script on the bioconductor home page. However, I get this error message: > source("http://www.bioconductor.org/biocLite.R") Error in file(file, "r", encoding = encoding) : unable to open connection In addition: Warning message: unable to connect to 'www.bioconductor.org' on port 80....

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("BiocIns...

Greetings to all and apologies for any cross-postings. If you know of anyone else who could benefit from this announcement please forward to them. Best regards and good luck to everyone, Michael O'Connell. BioConductor Project and Insightful Corp. Collaboration Announcement This week, Insightful Corporation announced the availability of S+ArrayAnalyzer version 2.0, an updated module for S-PLUS based on collaboration with the BioConductor Project - a widely-used open source and open development software project fo...

Hi, I am trying to install Bioconductor onto R version 2.7.0 for Windows. I installed R, then followed the instructions on http://www.bioconductor.org/download, which state that you should type the following: source("http://bioconductor.org/biocLite.R") biocLite() When I do that, I get the following error: Running biocinsta...

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 library("Rgraphviz"), and got...

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 install these "multt...

Hello, I am attempting to install Bioconductor on 64 bit R. The installation of some bioconductor packages fails with the errors below. I would be very grateful for any help on how to resolve the issue. Best regards, Octavio Espinosa --------------------- Most of the bioconductor packages won't install, for examples 'Biobase'...

...lumbia Cancer Research Centre email: smckinney at bccrc.ca tel: 604-675-8000 x7561 BCCRC Molecular Oncology 675 West 10th Ave, Floor 4 Vancouver B.C. V5Z 1L3 Canada -----Original Message----- From: Herve Pages [mailto:hpages at fhcrc.org] Sent: Tue 7/18/2006 12:51 PM To: Steven McKinney Cc: Bioconductor at stat.math.ethz.ch Subject: Re: [BioC] Errors using biocLite on Apple OS X Hi Steven, I can see warnings only in what you reported. These warnings are well-known issues but are not biocLite problems: they are Mac OS X install.packages() specific issues. The first warning: 1: number of rows...

I am aware of the R Genetics Project that developed the R library and software called Bioconductor (http://www.bioconductor.org/ ) . How do the two relate to each other? What is the one that the other is not and vice versa? Can anybody link me to something that answers the question? -- Farrel Buchinsky, MD Pediatric Otolaryngologist Allegheny General Hospital Pittsburgh, PA

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 &...