Issues with rda() "triplot" vectors
Closed this issue · 1 comments
hope this is appropriate
CONTEXT
I use the function rda() to analyse morpho-ecological correlations; having morphological (shapes variables coming from geometric morphometrics) and ecological (10 variables, ordinal or nominal) datasets.
The code, cca.object seem to be okay and I double checked for the dataset and inputs.
ISSUE
The triplot showes vectors ('bp') with random added letters instead of the true factor level... L and Q are not factor levels and understanble for me.
I hope somebody can help.
Thanks in advance.
DETAILS
My basic functions:
rda<-rda(coords~.,data=traits.f)
plot(rda,scaling=2,display="bp")
You have ordered factors which are expressed as linear (.L
) and quadratic (.Q
) contrasts and these effects are shown in graph as arrows. The behaviour is intended and documented. If you define display="cn"
instead of "bp"
, you will get the centroids of factor levels in addition to these arrows. If you do not want to get arrows for ordered factors, use unordered factors which will only be shown as the centroids of their factor levels.