Takes a distance matrix, returns a newick tree.
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With all default parameters, a run would look like this:
If your input file has your samples as rows instead of columns, just add the flag
You can also ask for an additional output file: the order of the items in the resulting dendrogram as a misc-data-items-order in LIST format. To get this, simply provide a path to its desired location with
Additionally, for hierarchical clustering, you can change the distance metric (a full list of the available metrics can be found here) or the linkage method (though this is not recommended, the list of options can be found here).
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Are you aware of resources that may help users better understand the utility of this program? Please feel free to edit this file on GitHub. If you are not sure how to do that, find the
__resources__ tag in this file to see an example.