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I use R for my data analysis, and I found an error when I use vegan packages for calculating and plotting CCA (Canonical Correspondence Analysis). One of all variable was loose and the eigenvalues different.

These is eigenvalues when I use R 

Eigenvalues for constrained axes:
   CCA1    CCA2    CCA3    CCA4    CCA5 
0.18496 0.02405 0.01492 0.01103 0.00260

And this is eigenvalues when I use PAST

Axis    Eigenvalue  %
1   0.11343 74.19
2   0.023363    15.28
3   0.011034    7.217
4   0.0050609   3.31
5   1.2233E-10  8.002E-08

I don't know about my fault. I need some problem solving

Richard Telford
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yunita emilia
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  • Would help if you added code and data enough to make your problem reproducible – Richard Telford Jul 15 '17 at 21:30
  • There seems to be no PAST tag in StackOverflow, but they have a mailing list at PAST . However, my guess is that you have defined your models differently in PAST and in vegan. We need something to reproduce, though. – Jari Oksanen Jul 16 '17 at 08:23
  • this is my code > library(readxl) > abiotik <- read_excel("D:/study/R-/Jurnal Pak Nia/abiotik.xlsx") > library("vegan", lib.loc="~/R/win-library/3.4") > abiotic <- abiotik [,c ('Temperature', 'Relative_Humidity', 'Rainfall', 'Water Conductivity', 'Water Temperature', 'Water pH')] > species <- abiotik [,c ('Culicidae', 'pyralidae', 'Formicidae', 'Delphacidae', 'Chrysomelidae', 'Poecilia_sp.', 'Lymnea_truncatula', 'M._granifera', 'M._plicaria', 'M._tuberculata')] > modelcca <- cca(species, abiotic) > plot(modelcca) @JariOksanen Richard Telford – yunita emilia Jul 17 '17 at 02:00
  • We stil cannot reproduce the problem, because we do not have the data. Moreover, the problem was the difference between vegan and PAST. I haven't used PAST, and cannot help there. However, I do think that you did something different in PAST. For PAST problems you should contact the PAST email list (I subscribe to that list and I haven't seen your message there yet). – Jari Oksanen Jul 17 '17 at 07:37
  • okay, i will give you the data. – yunita emilia Jul 20 '17 at 04:28

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