Canoco 5 supports distance-based methods (PCoA, dbRDA, NMDS)

Principal coordinate analysis (PCoA) and distance based RDA (db-RDA) are now easily accessible, with new distance measures added (11 distance types in total, including Bray-Curtis, Gower distance, or Jaccard coefficients). SImilarly, non-metric multidimensional scaling is also supported.

The above snapshot shows a specialized page shown in the Analysis Setup Wizard when you select an analysis template for principal coordinate analysis or distance-based RDA. On this page, you can select the distance type to calculate (or to use distances or similarities imported from elsewhere) and specify which scores to use in the following analysis steps.