ComplexHeatmap - Default distance and hierarchical clustering methods
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Katharina • 0
@c1cc8b34
Last seen 1 day ago
Berlin

Hello everyone,

as it is possible to specify the distance method (euclidian, pearson,..) and hierarchical clustering method (single, complete...) with ComplexHeatmap, I was wondering about the default settings in case I don't specify them myself?

Thanks a lot for your help.

ComplexHeatmap Complex • 75 views
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Basti ▴ 530
@7d45153c
Last seen 1 day ago
France

Default settings are "euclidean" and "complete" : https://github.com/jokergoo/ComplexHeatmap/blob/f6edeaa1241159119590a604ccd1f5b82a69b60e/man/Heatmap.Rd

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If you are answering a question, please use the ADD ANSWER button rather then ADD COMMENT so people know the question has been answered.

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Thank you very much, Basti! Do you know if it is the same for gplots::heatmap.2?

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Hi Katharina,

Default settings are same as with the ComplexHeatmap function, "euclidean" for the distance and "complete" for the method.

Check the following link for the heatmap.2 documentation, this one for the distfun argument and also here for the available hclustfun methods of heatmap.2 function.

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