Thanks Sean - good advice.

I have used siggenes previously - great package, very easy to use. However I need to do quantitative analysis which I don't think siggenes does - feel free to enlighten me ;-)

cheers

iain

Sean Davis <sdavis2@mail.nih.gov> wrote: On Wed, May 7, 2008 at 11:39 AM, IAIN GALLAGHER
 wrote:
> I've mostly solved my previous problem with samr (an issue with datatypes). However I now have the following problem. Whilst I can generate a sam.object and compute a delta table I cannot get samr to generate a list of significant genes.
>
>  The samr.compute.siggenes.table fails with:
>
>  Error in dimnames(res.up) = temp.names :
>   length of 'dimnames' [2] not equal to array extent
>
>  This is after quantitative analysis.
>
>  Can anyone help with this?

Hi, Iain.  Your best bet is to write to the package maintainer (who
may not be on this list since samr is not a bioconductor package).

As an alternative, have you considered the siggenes package for
performing your sam analysis?

Sean


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