v1.0

This code has been stable for three years and forms the calculation engine for PathPhynder https://github.com/ruidlpm/pathPhynder as published in

Rui Martiniano, Bianca De Sanctis, Pille Hallast, Richard Durbin, Placing Ancient DNA Sequences into Reference Phylogenies, Molecular Biology and Evolution, Volume 39, Issue 2, February 2022, msac017 https://doi.org/10.1093/molbev/msac017

Richard Durbin July 2023