[adegenet-forum] Dictating group membership for DAPC plot

[Thibaut Jombart]

Hi there,

changing the group membership for dapc scatterplot has been discussed
repeatedly on this forum, and is documented in ?scatter.dapc - see
argument 'grp'.

For identifying hybrids, the new method 'genclust' will be much more
appropriate - in the devel version for now, paper under review. As a
rule I don't think DAPC is appropriate at identifying hybrids. In
fact, models which classify individuals in parental populations will
most likely assign F1 fully to one of the parental populations (based
on geometric criteria or likelihood approaches).

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 13:03, Spencer Bruce <goatsrunfaster at gmail.com> wrote:
> Good Morning,
>
> I'm interested in creating a DAPC scatter plot for some hatchery fish
> populations where several of the populations are known F1 hybrids. When I go
> through the process of defining the clusters these admixed F1 individuals
> are sometimes assigned to their own cluster, but some individuals are often
> assigned to either of the two parental clusters. That being said, is there a
> way to dictate what clusters individuals are assigned to based on prior
> knowledge of their origin, rather than depending on the inferred grouping?
>
> Any help is greatly appreciated.
>
> Best,
> Spencer
>
> --
> Spencer A Bruce
> 113 Hill St.
> Troy, NY 12180
> 518 225 0787
>
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