How to plot the alpha functional diversity figure? see the example

[xiu zhong li]

Please see the example figure:

I have built three matrices, species for birds, attributes for climate variables, and traits for birds traits (all Q-code in trait matrix), and calculated the CMW, and Shannon's, Simpson's, and Rao's Q, and FDis indices.  So, how can I run the PCoA using Gower distance, which matrices are built? and how to graphic the figures like the example? Thanks, look forward to your reply.

[Bruce McCune]

The figure did not come through for me, but you can un PCoA on any of your matrices by making it your main matrix, then opening whatever variables you wish to overlay as your second matrix, then Ordination | PCoA | Distance measure select as Gower.

Bruce McCune

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[xiu zhong li]

Thank you for your reply, I send the picture for you again via both paste and attachment, I hope you can see it this time. I analyzed the functional diversity, and got the shannon's, simpson's, Rao's Q, and FDis indices, and got the CWM. I would like to plot a picture like the above or the attachment picture. So the first matrix is species matrix and run the PCoA to get axes, then what's the second matrix? Thanks again.

Bruce McCune <bruce...@gmail.com> 于2020年11月9日周一 上午9:53写道：

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[Bruce McCune]

These are diagrams indicating the method of calculation for various functional diversity indices rather than actual results. Note that the axes are individual traits, for illustration purposes. In a multivariate context the equivalent would be species as points in trait space. To get this you could ordinate your matrix of species (rows) by traits (columns) in the main matrix. Species that are close to each other would have similar traits. If you wanted to overlay particular sample units, implicit in the functional diversity measures, you could do that by opening your species (rows) by sample units (columns) as the second matrix. Then you could make symbol sizes proportional to the abundances of the species in particular sample units.

I hope this helps.

Bruce McCune

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