Hi Sean,


I figure heamap() can also be applied if I supply a txt file of Illumina
gene
expression data based on genes of our interests. I will give it a shot.
Thanks
a lot. One concern I have about heatmap() is that how it could generate a
heatmap with green, black, red colors. Adding some parameters to do so?

Regards,

Allen



On Thu, May 22, 2008 at 4:13 PM, Sean Davis <sdavis2@mail.nih.gov> wrote:

> On Thu, May 22, 2008 at 2:04 PM, ss <affysnp@gmail.com> wrote:
> > Hi list,
> >
> > I'd appreciate if you could shed some lights on building heatmap for
> > Illumina gene expression data using any bioconductor or R packages.
>
> Hi, Allen.  If you have an ExpressionSet called xset, you can do:
>
> heatmap(exprs(xset)[1:25,])
>
> This will give you a heatmap of the first 25 genes.
>
> There are numerous references to heatmaps in the bioconductor list
> archives.  I would give a few of those a try.  If you run into
> problems, then you will likely want to post the code that you are
> using as well as the output of sessionInfo().
>
> Sean
>

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