You haven't supplied any data, and we can only guess which cca()
function you are using (ade4::cca, ..., vegan::cca(), yacca::cca), and
the term 'cca' generally refers to canonical correspondence analysis,
which is not quite the same thing as 'three-way correspondence analysis'.
For three-way tables, there are several variations of standard
correspondence analysis that generalize CA for two-way tables
in reasonable, but different ways.
You may find more joy using the mjca() in the ca package
which provides these alternatives.
best,
-Michael
On 8/2/2016 3:58 PM, Suparna Mitra wrote:
Hello R experts,
have some data for microbiome, metabolome and cytokine from the same
sample. Now I want to do a three-way correspondence analyses. From three
normalised data I was trying,
#Now CCA
with two data it works good like:
Metab.Cytok.Microb.cca <- cca(normMicrobiome_NEC,normCytok_and_ProInf)
plot(Metab.Cytok.Microb.cca )
Metab.Cytok.Microb.cca <- cca(normMicrobiome_NEC,normMetab_NEC)
plot(Metab.Cytok.Microb.cca )
But when I tried with three
Metab.Cytok.Microb.cca <-
cca(normMicrobiome_NEC,normMetab_NEC,normCytok_and_ProInf)
plot(Metab.Cytok.Microb.cca )
But this is not displaying all three variables.
Sorry, I am very new in this. Can anybody please help me?
Thanks a lot,
Mitra
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