Question: Where to download older version of R packages in Bioconductor?
0
gravatar for xieshaojun0621
20 months ago by
United States
xieshaojun062180 wrote:

I want to use the old version edgeR (v3.12.0). I tried to search using Google. I can't get the link for this version. Does anyone know how to resolve this? Thanks.

3.12.0 edger rna-seq • 745 views
ADD COMMENTlink modified 5 weeks ago by Charles Plessy2.4k • written 20 months ago by xieshaojun062180

3.12.0 wasn't part of a bioconductor release, so you'd need to much with svn to actually find it and there's no guarantee it exists there. Are you sure you don't want 3.12.1, which was available here?

ADD REPLYlink written 20 months ago by Devon Ryan75k
1

While I don't know where to get it, I have a question: Do you mind telling us why you need an old version, I am curious.

ADD REPLYlink written 20 months ago by LLTommy1.2k

The reason is we have two similar projects from the sample lab. The first one was already finished. For the new one, we'd like to keep the tools we used consistent. Now if I used biocLite("edgeR") to install, it will automatically install v1.12.1 under R-3.2.2.

ADD REPLYlink modified 20 months ago • written 20 months ago by xieshaojun062180

Thanks. I will try.

ADD REPLYlink written 20 months ago by xieshaojun062180

I found a possible way to do this.

svn co https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks Rpacks-devel/edgeR --username readonly

The password is also readonly.

svn log Rpacks-devel/edgeR/ > edgeR_svn.log

If you know the reversion number, you can use: svn update -rVERISONNUMBER

to update the code.

References: https://www.bioconductor.org/developers/source-control/ http://stackoverflow.com/questions/6589512/checkout-a-specific-older-version-of-the-source-code-through-subversion/13619486#13619486 https://www.bioconductor.org/developers/version-numbering/

ADD REPLYlink modified 20 months ago • written 20 months ago by xieshaojun062180
2
gravatar for venu
7 months ago by
venu4.7k
Germany
venu4.7k wrote:

Recently I had to download some older versions as well and I came across the following link which maintains all versions of a Bioconductor package

https://bioarchive.galaxyproject.org/#/pkg/Biobase/

I thought it's worth it to post here, so future googlers will find a straight forward solution.

ADD COMMENTlink written 7 months ago by venu4.7k
0
gravatar for Charles Plessy
5 weeks ago by
Charles Plessy2.4k
Japan
Charles Plessy2.4k wrote:

Some Bioconductor packages are redistributed by Debian, and with a bit of luck some previous versions might be found in our snapshot archive.

ADD COMMENTlink written 5 weeks ago by Charles Plessy2.4k
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