Computational Inference Beyond Kingman's Coalescent. - Jere Koskela; Paul A. Jenkins; Dario Spanò (J. Appl. Probab., 2015)

Inference and rare event simulation for stopped Markov processes via reverse-time sequential Monte Carlo. - Jere Koskela; Dario Spanò; Paul A. Jenkins (Stat. Comput., 2018)

Bayesian inference of ancestral recombination graphs. - Ali Mahmoudi; Jere Koskela; Jerome Kelleher; Yao-ban Chan; David J. Balding (PLoS Comput. Biol., 2022)

Zig-Zag Sampling for Discrete Structures and Nonreversible Phylogenetic MCMC. - Jere Koskela (J. Comput. Graph. Stat., 2022)

EWF: simulating exact paths of the Wright-Fisher diffusion. - Jaromir Sant; Paul A. Jenkins; Jere Koskela; Dario Spanò (Bioinform., 2023)

Bayesian Inference of Pathogen Phylogeography using the Structured Coalescent Model. - Ian Roberts; Richard G. Everitt; Jere Koskela; Xavier Didelot (PLoS Comput. Biol., 2025)