Question: Canonical Correspondence Analysis in R with Vegan library
0
gravatar for Denis
28 days ago by
Denis110
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.

R • 97 views
ADD COMMENTlink modified 27 days ago by Jean-Karim Heriche20k • written 28 days ago by Denis110
1
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
1

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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