[adegenet-forum] Identification of mixture individuals

[Thibaut Jombart]

Hi Sandra

it depends on what you are looking for, and which method you used for this
analysis.

What you are looking for:
- migrants: I would assume these would be individuals fully classified in a
group while being tagged as members of another
- admixed individuals: these would be hybrids between parental populations,
so appearing as 'mixed genotypes'

The method:
DAPC tends to make clear-cut groups, so you may be good at identifying
migrants as defined above. If you are looking for hybrids, then DAPC is not
the way to go. Adegenet has a good alternative for this now, but it is not
too well documented, with a disclaimer: "don't use yet, we work on that
stuff".  As a matter of fact I am submitting a revision of the MS today. If
you are interested in this, then PM me and we can discuss things further.

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 12 September 2017 at 14:15, Sandra Ludwig <sand.ludwig at gmail.com> wrote:

> Hello,
>
> I`m working with 8 loci of msats in several fish populations from Brazil,
> and during the analysis I'm using adegenet package to identify clusters (k)
> and also to estimate migration pattern between the populations.
> So...I'm wondering if I can assume that the individuals with mixed
> genotypes (see the output below) could be migrants individuals that were
> sampled in distinct populations? [image: Imagem inline 1]
>
> Thanks for your help!!
> Sandra
> ------
> Sandra Ludwig
> Substitute Profesor of Zoology
> Laboratory of Biotecnology and Molecular Markers - E3 179
> Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
> Phone: (+55031) 97101-3052 <+55%2031%2097101-3052>
> s <faperini at ufmg.br>andraludwig at ufmg.br
> http://lattes.cnpq.br/6627603237397917
>
>
>
>
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