Message-ID: <4B03A96D.50405@statistik.tu-dortmund.de>
Date: 2009-11-18T07:59:41Z
From: Uwe Ligges
Subject: question about function heatmap
In-Reply-To: <8ee9d8f20911171403s2fe7454bmce4bc15de9faa906@mail.gmail.com>
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Uwe Ligges
Waverley @ Palo Alto wrote:
> Hi,
>
> I am using the function heatmap(stats) to draw a microarray heatmap,
> columns are samples and rows are gene features.
>
> I did a 2D clustering during the heatmap drawing. The features and
> samples indeed cluster into several blocks both vertically and
> horizontally.
>
> I can get the index of re-ordered rows and columns after the heatmap
> drawing by typing the the return variable of the heatmap function.
> However, I cannot separate these index by the the dendro tree. All
> the indexes labeled at the bottom and right of the plot all jammed
> together. I cannot by looking at the plot to find where the borders
> are.
>
> Can someone help? Essentially I want the dendro tree of the genes
> which are grouped after the clustering so that, e.g., I want to check
> whether genes clustered together are in the same pathway etc.
>
> Thanks in advance.
>