Question: Canonical Correspondence Analysis in R with Vegan library
gravatar for Denis
28 days ago by
Denis110 wrote:

Hi there! I'm looking for a tutorial for performing Canonical Correspondence Analysis (CCA) and assesing its quality in R using Vegan library. Is there any useful materials to check? Exemple of CCA i found in Vegan documentation is not very detailed in my opinion.

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ADD COMMENTlink modified 27 days ago by Jean-Karim Heriche20k • written 28 days ago by Denis110
gravatar for Jean-Karim Heriche
27 days ago by
EMBL Heidelberg, Germany
Jean-Karim Heriche20k wrote:

Don't you have access to a web search engine? Just typing "R CCA tutorial" yields at least for me the following:

If these don't work for you, please be more specific about what your issues are.

ADD COMMENTlink written 27 days ago by Jean-Karim Heriche20k

Thanks for reply! I've checked all links you provided before posting the question of course. The 2-nd option from your list is suitable for me. But I confused, which commands related to CCA and which to Partial CCA?

ADD REPLYlink written 26 days ago by Denis110

Read the doc for the cca() function. Both CCA and partial CCA are done using this function. The difference is that for partial CCA you need a third matrix, i.e. as per the doc:

partial_cca <- cca(X, Y, Z)

or with a formula:

partial_cca <- cca(X ~ Y + Condition(Z))
ADD REPLYlink written 25 days ago by Jean-Karim Heriche20k
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