[BioC] DEseq version and R version compatibility

Kasper Daniel Hansen kasperdanielhansen at gmail.com
Thu Oct 4 15:25:37 CEST 2012

See Sean's answer for more details, but I just wanted to note that you
are trying to get a script to work across more then 1 year of
development of the package.  I would not expect that to work, given
that a lot is happening with the sequencing packages these days.


On Thu, Oct 4, 2012 at 8:24 AM, José Luis Lavín <jluis.lavin at unavarra.es> wrote:
> Dear all,
> First of all I'd like to apologize for bothering you with such a naive
> question, but I've been told that this is the place to ask about this
> particular issue.
> I'm trying to perform a Differential Expresion analysis on some RNA-seq
> experiments using DEseq package. I'm not very fluent with R yet, and I'm
> facing some problems while using DEseq for the analysis. In my institution
> the R version of the Linux servers system is 2.13.0 and the version I
> installed in my windows terminal is 2.15.2.
> I've retrieved multiple DEseq manual versions from the internet (dated
> 19/01/2010, 21/04/2011 and 12/04/2012) , but some R commands vary from one
> to another and some are not supported in one or the other R versions I have
> available. I need the R script to work in both versions and I don't really
> know how to achieve it...
> Could you please help me solving this giving me some kind of advice on how
> to get a functional and compatible script to be used with both R versions I
> previously stated?
> Thanks in advance for your kind support.
> With best wishes
> JL
> --
> --
> Dr. José Luis Lavín Trueba
> Dpto. de Producción Agraria
> Grupo de Genética y Microbiología
> Universidad Pública de Navarra
> 31006 Pamplona
> Navarra
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