[adegenet-forum] Varimax

[Thibaut Jombart]

Dear JL,

this is a good idea, but I must confess I have never used varimax rotation
myself, so I can't advise on this. This said, it would be nice to see a
documented example on genetic data, if it turns out to be useful.

Best
Thibaut


--
Dr Thibaut Jombart
Lecturer, Department of Infectious Disease Epidemiology, Imperial College
London
Head of RECON: repidemicsconsortium.org
WHO Consultant - outbreak analysis
sites.google.com/site/thibautjombart/
Twitter: @TeebzR
+44(0)20 7594 3658

On 9 June 2017 at 16:08, Jean-Luc Legras <jean-luc.legras at inra.fr> wrote:

> Hi all
>
> Adegenet is a fantastic tool for population genetic analysis.
>  I used a  PCA on my dataset and populations are clearly clustered.
> However, in this case  they do not fit with the axis.  I was wondering if
> it was possible to setup a Varimax procedure after the PCA  (here centered,
> unscaled PCA) in order to make the main population dispersal fit the axis...
>
>
> Best regards.
>
> JL
>
>
> scatter plot;
>
>
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