[adegenet-forum] xvalDapc and group prediction accuracy

[Thibaut Jombart]

Hi there

ignore the warning - it is ad-hoc, and should be removed.

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 25 September 2017 at 15:58, Mark Coulson <Mark.Coulson.ic at uhi.ac.uk> wrote:
> Hello,
>
>
>
> I am using xvalDapc on a dataset and it produces a nice arc-shape with the
> optimal number of PCs retained at 20. However, if I run the dapc function
> keeping 20 PCs, I get the warning that
>
>
>
> ‘#PCs may be too large (>N/3) and that results may be unstable’
>
>
>
> How should I interpret this given the choice to use 20 PCs was through the
> double-cross validation procedure?
>
>
>
> Thanks,
>
> Mark
>
> Inverness College UHI, a partner in the University of the Highlands and
> Islands www.inverness.uhi.ac.uk Board of Management of Inverness College
> (known as Inverness College UHI), Scottish Charity No SC021197.
>
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