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Question: Rearrange dendrogram to match merged modules in WGCNA?
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gravatar for Jon Bråte
4.0 years ago by
Jon Bråte150
Norway
Jon Bråte150 wrote:

Hi,

In the WGCNA you can merge very similar modules, but then some modules might be split up when matching to the original dendrogram. I was wondering if it is possible to draw the dendrogram (and the heatmap) so that the individual modules are together (e.g. the blue module in the image)?

Jon


ADD COMMENTlink modified 4.0 years ago by Keith Hughitt120 • written 4.0 years ago by Jon Bråte150
1
gravatar for Keith Hughitt
4.0 years ago by
Keith Hughitt120
United States
Keith Hughitt120 wrote:

Hi Jon,

I don't know of any way to update the dendrogram after it has been created, but one thing you might try is to tweak some of the earlier parameters instead, and skip the module merging. In my experience, you can often arrive at similar results simply by increasing the minimum module size, or decreasing /disabling the "deepSplit" parameter.

Cheers,

Keith

ADD COMMENTlink written 4.0 years ago by Keith Hughitt120

Thanks for the advice!

ADD REPLYlink written 4.0 years ago by Jon Bråte150
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