phyloseq R package, plot_ordination using CAP gives axis1 = CAP1 and axis2 = MDS1?

17 August 2022 0 8K Report

Hi,

When using the phyloseq R package for microbiota analyses, I don't understand why, when plotting the ordinate (plot_ordination) result using the setting "CAP", the visualisation shows axis1 = CAP1 and axis2 = MDS1.

Hope someone can explain why this happens and potentially how to change this into CAP2 on axis2.

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