2025 The structure of deviations from maximum parsimony for densely-sampled data and applications for clade support estimation William Howard-Snyder, Will Dumm, Mary Barker, Ognian Milanov, Claris Winston, David H Rich, Marc A Suchard, and Frederick A Matsen IV IEEE Transactions on Computational Biology and Bioinformatics, 2025 2023 Representing and extending ensembles of parsimonious evolutionary histories with a directed acyclic graph Will Dumm, Mary Barker, William Howard-Snyder, William S. DeWitt, and Frederick A. Matsen IV 2023 arXiv Code 2022 Matryoshka Representation Learning Aditya Kusupati, Gantavya Bhatt, Aniket Rege, Matthew Wallingford, Aditya Sinha, Vivek Ramanujan, William Howard-Snyder, Kaifeng Chen, Sham Kakade, Prateek Jain, and Ali Farhadi 2022 arXiv Code