[R] question about function heatmap

[Uwe Ligges]

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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.
>