TreeMix

From UFRC
Jump to navigation Jump to search

Description

treemix website  

TreeMix is a method for inferring the patterns of population splits and mixtures in the history of a set of populations. In the underlying model, the modern-day populations in a species are related to a common ancestor via a graph of ancestral populations. We use the allele frequencies in the modern populations to infer the structure of this graph.

Required Modules

Serial

  • treemix

System Variables

  • HPC_TREEMIX_DIR - installation directory




Citation

If you publish research that uses treemix you have to cite it as follows:

For the basic TreeMix functions of building trees and adding migration, please cite: Pickrell and Pritchard (2012). Inference of population splits and mixtures from genome-wide allele frequency data. PLoS Genetics.

For the model incorporating known admixture (-cor mig), please cite: Pickrell et al. (2012). The genetic prehistory of southern Africa. NatureCommunications.