How to represent the PCoA in 2 dimensions and how to add ellipses in the figure to differenciate between groups ?

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Hello,

I created PCOA plot to investigate beta diversity metric using Emperor tool. I obtained 3D plot. I would like to generate 2D plot and to add ellipses in the figure to differenciate between groups for example affected versus controls. which command can i use to achieve this task ?

Thank you for your help

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Hi @M_F ,
Emperor does not have an option to add ellipsoids, though it does have a 2D display option.

Other options for 2D + ellipsoids (using python or R) have been discussed here:

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@Nicholas_Bokulich Thanks

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