J. Wakeley

TRAILS: tree reconstruction of ancestry using incomplete lineage sorting

TRAILS infers time-resolved population genetics parameters and speciation times using multi-species genome alignments, improving accuracy over previous methods.

Correlation of coalescence times in a diploid Wright-Fisher model with recombination and selfing

The paper quantifies how recombination and selfing affect coalescence time correlations in a diploid Wright-Fisher model and derives asymptotic formulas for different scaling scenarios.

Bursts of coalescence within population pedigrees whenever big families occur

The paper analyzes a population-genetic model with big families and shows how pedigree structure affects coalescence times, differing from standard coalescent models.

Recurrent mutation in the ancestry of a rare variant

The paper develops a statistical model to account for recurrent mutations in the ancestry of rare variants and applies it to human SNP data to explain differences in site-frequency spectra across mutation rates.

Genomic architecture and introgression shape a butterfly radiation

The paper uses a low-cost genome assembly strategy to study Heliconius butterfly evolution, finding that introgression, not incomplete lineage sorting, explains most non-canonical genetic histories.

A Two-Player Iterated Survival Game

This paper analyzes an iterated survival game between two players, showing that cooperation becomes favored under certain conditions as the number of iterations increases.

Population structure and coalescence in pedigrees: comparisons to the structuredcoalescent and a framework for inference

The paper investigates coalescence patterns in structured populations using pedigrees and proposes a maximum-likelihood framework for inferring migration and mutation rates.