Geneland: a computer package for landscape genetics. Geneland is a computer package that allows to make use of georeferenced individual multilocus genotypes for the inference of the number of populations and of the spatial location of genetic discontinuities between those populations. Main assumptions of the method are: (i) the number of populations is unknown and all values are considered a priori equally likely, (ii) populations are spread over areas given by a union of some polygons of unknown location in the spatial domain, (iii) Hardy–Weinberg equilibrium is assumed within each population and (iv) allele frequencies in each population are unknown and treated as random variable either following the so-called Dirichlet model or Falush model. Different algorithms implemented in Geneland to perform inferences are first briefly presented. Then major running steps and outputs (i.e. histogram of number of populations and map of posterior probabilities of population membership) are illustrated from the analysis of a simulated data set, which was also produced by Geneland.
Keywords for this software
References in zbMATH (referenced in 3 articles )
Showing results 1 to 3 of 3.
- Ioanna Manolopoulou, Axel Hille: BPEC: An R Package for Bayesian Phylogeographic and Ecological Clustering (2016) arXiv
- Mazet, Olivier; Rodríguez, Willy; Chikhi, Lounès: Demographic inference using genetic data from a single individual: separating population size variation from population structure (2015)
- Toussile, Wilson; Gassiat, Elisabeth: Variable selection in model-based clustering using multilocus genotype data (2009)
Further publications can be found at: http://www2.imm.dtu.dk/~gigu/Geneland/#Reference%20papers