Evaluation of methods for estimating coalescence times using ancestral recombination graphs.

ABSTRACT: The ancestral recombination graph is a structure that describes the joint genealogies of sampled DNA sequences along the genome. Recent computational methods have made impressive progress toward scalably estimating whole-genome genealogies. In addition to inferring the ancestral recombination graph, some of these methods can also provide ancestral recombination graphs sampled from a defined posterior distribution. Obtaining good samples of ancestral recombination graphs is crucial for quantifying statistical uncertainty and for estimating population genetic parameters such as effective population size, mutation rate, and allele age. Here, we use standard neutral coalescent simulations to benchmark the estimates of pairwise coalescence times from 3 popular ancestral recombination graph infe

SUBMITTER: Y C Brandt D 

PROVIDER: S-EPMC9071567 | biostudies-literature | 2022 May

REPOSITORIES: biostudies-literature