[adegenet-forum] Identification of mixture individuals

Thibaut Jombart thibautjombart at gmail.com
Fri Oct 6 11:31:02 CEST 2017

Hi Sandra

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

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.


Dr Thibaut Jombart
Lecturer, Department of Infectious Disease Epidemiology, Imperial College
Head of RECON: repidemicsconsortium.org
WHO Consultant - outbreak analysis
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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