[BioC] heatmap.2 ..help..how to cluster column ..but not Rows..

[Saurin D. Jani]

Hi Sean,

heatmap.2(FeatureX,col=bluered,Colv = as.dendrogram(hclust(col.dist, method = "centroid")), scale = "none",key = TRUE, dendrogram = "column", density.info = "none",tracecol="black");


This one gives dendrogram on column and key is there as well..the only problem is Rows are being clustered as well...how do I prevent rows to get clustered?

Thanks,
Saurin



--- On Thu, 4/14/11, Sean Davis <sdavis2 at mail.nih.gov> wrote:

> From: Sean Davis <sdavis2 at mail.nih.gov>
> Subject: Re: [BioC] heatmap.2 ..help..how to cluster column ..but not Rows..
> To: saurin_jani at yahoo.com
> Cc: "Bioconductor Bioconductor" <bioconductor at stat.math.ethz.ch>
> Date: Thursday, April 14, 2011, 10:24 PM
> On Thu, Apr 14, 2011 at 9:49 PM,
> Saurin D. Jani <saurin_jani at yahoo.com>
> wrote:
> > Hi BioC,
> >
> > This must be simple but somehow I can not be able to
> do it...
> > How can I cluster samples only.. below code is giving
> me dendrogram on both rows and clumns...! if I do Rowv =
> FALSE..then I don't see any colors and KEY.
> >
> 
> Hi, Saurin.
> 
> See the "dendrogram" argument in heatmap.2 help.  In
> particular,
> dendrogram="column" will turn off the row dendrogram.
> 
> Sean
> 
> > Please see this:
> >
> > FeatureX is Matrix with proper rows and colmns.
> >
> >
> > row.dist <- as.dist(1 - cor(t(FeatureX)));
> > col.dist <- as.dist(1 - cor(FeatureX));
> > heatmap.2(FeatureX,col=bluered,Colv =
> as.dendrogram(hclust(col.dist, method = "centroid")), scale
> = "none",key = TRUE,density.info =
> "none",tracecol="black");
> >
> > Thank you in advance,
> > Saurin
> >
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>