[adegenet-forum] Different results from PCA derived from DAPC

[Roman Luštrik]

Hi, 

can you provide a reproducible example? 
DAPC works with dudi.pca function and implementation may differ from prcomp() or princomp(). If you are not satisfied with dudi.pca for some reason, you can supply your own object from other functions. As far as I can see from the code, you will need to have a list of elements (this is not documented, mind you): eig, li, c1, cent, norm. You can dissect the dudi.pca object and see what's what. 

Cheers, 
Roman 

---- 
In god we trust, all others bring data. 


From: "kin onn" <kin_onn at yahoo.com> 
To: adegenet-forum at lists.r-forge.r-project.org 
Sent: Thursday, April 21, 2016 5:24:21 PM 
Subject: [adegenet-forum] Different results from PCA derived from DAPC 

Dear adegenet users, 

Results from a regular PCA (using the function prcomp() )is very different from the results of the PCA that DAPC performs. I was wondering if anybody knows why? Thank you in advance! 


Best regards, 
Chan 
Biodiversity Institute and Department of Ecology and Evolutionary Biology 
University of Kansas 
Dyche Hall, 1345 Jayhawk Blvd 
Lawrence, KS 66045-7593 

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