Autopolyploidy is quite common in most clades of eukaryotes. The
emergence of sequence-based genotyping methods with individual and
marker tags enables now confident allele dosage, overcoming the main
obstacle to the democratization of the population genetic approaches
when studying ecology and evolution of autopolyploid populations and
species. Reproductive modes, including clonality, selfing and allogamy,
have deep consequences on the ecology and evolution of population and
species. Analysing genetic diversity and its dynamics over generations
is one efficient way to infer the relative importance of clonality,
selfing and allogamy in populations. GENAPOPOP is a user-friendly
solution to compute the specific corpus of population genetic indices,
including indices about genotypic diversity, needed to analyse partially
clonal, selfed and allogamous polysomic populations genotyped with
confident allele dosage. It also easily provides the posterior
probabilities of quantitative reproductive modes in autopolyploid
populations genotyped at two-time steps and a graphical representation
of the minimum spanning trees of the genetic distances between polyploid
individuals, facilitating the interpretation of the genetic coancestry
between individuals in hierarchically structured populations. GENAPOPOP
complements the previously existing solutions, including SPAGEDI and
POLYGENE, to use genotypings to study the ecology and evolution of
autopolyploid populations. It was specially developed with a simple
graphical interface and workflow, and comes with a simulator to
facilitate practical course and teaching of population genetics for
autopolyploid populations.