[R] heatmap-how to change the order of the rows (genes)

[Steve Lianoglou]

Hi,

On Wed, Feb 9, 2011 at 12:18 PM, yan liu <yanliusun at gmail.com> wrote:
> Hi,
>
> I have a question about the heatmap dendrogram in R.  I loaded my data
> matrix in command heatmap(), and it gave me a heatmap accordingly, and the
> rows (genes) also were clustered accordingly.  But now I don't want the
> genes clustered in that way, I have a new order of these genes, and want the
> rows of the heatmap are drawed as the order I give.  Could anybody help me
> on that?  Thank you!

Check out the docs for heatmap a bit more carefully:

R> ?heatmap

I would try setting Rowv=NA, and reorder the rows of your matrix as
you want them to be ordered, ie:

R> heatmap(m[my.gene.order,], Rowv=NA, ...)

Or something like that.

-- 
Steve Lianoglou
Graduate Student: Computational Systems Biology
 | Memorial Sloan-Kettering Cancer Center
 | Weill Medical College of Cornell University
Contact Info: http://cbio.mskcc.org/~lianos/contact