Canoco 5 offers many specialized analyses (some of them completely new, such as the symmetric co-correspondence analysis), and all of them are very easy to apply to your data. Here we present just one example, representing the principal response curves (PRC) method.
The setup is very straightforward, with one specialized page added to the Analysis Setup Wizard. In this page, you select the treatment and temporal factors and confirm or adjust the translation of the time factor levels into quantitative time values used in the PRC diagram. By the way, you should note that the factors are in Canoco 5 no longer represented as dummy (0/1) variables.
The Canoco Adviser even suggests (based on the choices made in the above page) proper setup of the permutation test, using split-plot design permutations.
Each computed analysis is presented – beside the standard Summary page – in a specialized PRC page of the analysis notebook, summarizing the tests of significance for individual PRC sets (constrained axes).
Creating PRC diagram is then a piece of cake with the Graph Wizard:
And here is the resulting diagram, with correctly aligned vertical axes of the two components of the PRC diagram.
