Vegan_package: Plot PCA

If I do understand this is what you are looking for :

plot(x, choices = c(1, 2), display = c("sp", "wa", "cn"),
         scaling = 2, type, xlim, ylim, const, ...)


The option choices helps you to select the axis. In your case it would be choices = c(1,3) [axis 1 vs 3] or choices = c(2,3) [axis 2 vs 3]

Hope this would help you.


Abdoul


Le mar. 26 f?vr. 2019 ? 19:20, Lara Silva <lara.sfp.silva at gmail.com> a
?crit :

Hello,

I am using the VEGAN package to do PCA of my variables.


bio.pca <- rda(variables, scale=TRUE) # Argument scale=TRUE

bio.pca

summary(bio.pca) # Default scaling 2

summary(bio.pca, scaling=2)



sum_bio <-summary(bio.pca)

names(sum_bio)

sum_bio$species



#make basic plot

biplot(env.pca,

       display = c("sites",

                   "species"),

       type = c("text",

                "points"))



In my plot I have PCA 1 e PCA 2. Is there a way to plot the PCA 3?


Thanks,


Lara

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Abdoul Ousmane DIA