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Systematic Biology|February 25, 2025
Improved robustness to gene tree incompleteness, estimation errors, and systematic homology errors with weighted TREE-QMCYunheng Han, Erin K MolloyAlgorithms for Molecular Biology : AMB|December 2, 2023
Quartets enable statistically consistent estimation of cell lineage trees under an unbiased error and missingness modelYunheng Han, Erin K MolloyGenome Research|May 17, 2023
Improving quartet graph construction for scalable and accurate species tree estimation from gene treesYunheng Han, Erin K MolloyAlgorithms for Molecular Biology : AMB|January 8, 2024
Dollo-CDP: a polynomial-time algorithm for the clade-constrained large Dollo parsimony problemJunyan Dai, Tobias Rubel, Yunheng Han, et al.Systematic Biology|October 14, 2017
To Include or Not to Include: The Impact of Gene Filtering on Species Tree Estimation MethodsErin K Molloy, Tandy WarnowBioinformatics (Oxford, England)|July 14, 2020
FastMulRFS: fast and accurate species tree estimation under generic gene duplication and loss modelsErin K Molloy, Tandy WarnowAlgorithms for Molecular Biology : AMB|July 31, 2019
Statistically consistent divide-and-conquer pipelines for phylogeny estimation using NJMergeErin K Molloy, Tandy WarnowBioinformatics (Oxford, England)|September 13, 2019
TreeMerge: a new method for improving the scalability of species tree estimation methodsErin K Molloy, Tandy WarnowJournal of Computational Biology : a Journal of Computational Molecular Cell Biology|October 31, 2025
StarCDP: Dynamic Programming Algorithms for Fast and Accurate Cell Lineage Tree Reconstruction from CRISPR-Based Lineage Tracing DataJunyan Dai, Erin K MolloyBioinformatics (Oxford, England)|July 12, 2021
Advancing admixture graph estimation via maximum likelihood network orientationErin K Molloy, Arun Durvasula, Sriram SankararamanPageof 5