[BioC] Error to install a package for Affymetrix data

[James W. MacDonald]

Hi Chagdal,

One way to proceed is to start R in the directory containing your 
celfiles and then do

biocLite("oligo")
library(oligo)
dat <- read.celfiles(list.celfiles())
eset <- rma(dat)

then you want the hugene21sttranscriptcluster.db package to annotate:

biocLite("hugene21sttranscriptcluster.db")

Best,

Jim



On 6/14/2013 6:12 AM, chm chag wrote:
> Hello,Dear Madam, Sir,I am a novice student of R, I'm in a training graduation and I encountered a problem on R (version 2.15.3) for the analysis of 'hugene21st' Affymetrix chips type; by installing the 'hugene21st' package with the controls:source ("http://www.bioconductor.org/biocLite.R")biocLite ("hugene21st")I have this error message:
>
> package 'hugene21st' is not available (for R Version 2.15.3)
>
> what to do to fix this problem pleas, or what version of R should be used to treat these chips.
>
>
>
> cordially;
>
>
>
> Chagdal Madiha
> SITN Master-2 : Statistics, Computer and Digital Techniques
> Claude Bernard Lyon-1 University 		 	   		
> 	[[alternative HTML version deleted]]
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at r-project.org
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor

-- 
James W. MacDonald, M.S.
Biostatistician
University of Washington
Environmental and Occupational Health Sciences
4225 Roosevelt Way NE, # 100
Seattle WA 98105-6099