The software package KimTree implements a hierarchical Bayesian model to estimate divergence times (in a diffusion time scale) in a population tree, from large single nucleotide polymorphism (SNP) data. The joint analysis of autosomal and X-linked polymorphisms further allows KimTree to infer the effective sex ratios or ESR (defined as the female proportion of the effective population), along each branch.
If you have any question, please feel free to contact me. However, I strongly recommend you read the manual first.
Gautier M. and Vitalis R. 2013. Inferring population histories using genome-wide allele frequency data. Molecular Biology and Evolution 30: 654-668 https://doi.org/10.1093/molbev/mss257
Clemente F, Gautier M and Vitalis R (2018) Inferring sex-specific demographic history from SNP data. PLoS Genetics 14(1): e1007191 https://doi.org/10.1371/journal.pgen.1007191
By Renaud Vitalis on 2018-09-20
