[BioC] proper way to handle small changes from different package versions

[James W. MacDonald]

Hi Juliet,

It depends on what version of R you had installed at the time. Two years 
ago it would have probably been R-2.14.0 or so. You will really need to 
know which version of R you were using, as the lumi package version is 
tied to the R version.

Anyway, you don't say what OS we are talking about, but you want to go 
to one of these repositories

Linux:

http://cran.r-project.org/src/base/R-2/

Windows:

http://cran.r-project.org/bin/windows/base/old/

MacOS

http://cran.r-project.org/bin/macosx/old/

And install whatever version you think it might have been.

After installing, you can then just do

source("http://www.bioconductor.org/biocLite.R")
biocLite()
biocLite("lumi")


Best,

Jim



On 5/31/2013 9:22 AM, Juliet Hannah wrote:
> All,
>
> I had used the lumi package two years ago to analyze Illumina microarray
> data. I saved the normalized file and have been working with that. I have
> been asked by GEO to provide a file that has not been preprocessed fully.
> However, perhaps because of minor changes, the resulting number of probes
> excluded changes from what I had documented in the past (using the same
> script).
>
> It seems my path forward should be to use an older version of lumi (where
> can I find this) and try and see if that gives me the same number as
> before. How can I install this older version?
>
> Thanks,
>
> Juliet
>
> 	[[alternative HTML version deleted]]
>
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-- 
James W. MacDonald, M.S.
Biostatistician
University of Washington
Environmental and Occupational Health Sciences
4225 Roosevelt Way NE, # 100
Seattle WA 98105-6099