AUGIST: inferring species trees while accommodating gene tree uncertainty. - Jeffrey C. Oliver (Bioinform., 2008)

NovoGraph: Genome graph construction from multiple long-read de novo assemblies. - Evan Biederstedt; Jeffrey C. Oliver; Nancy F. Hansen; Aarti Jajoo; Nathan A. Dunn; Andrew Olson; Ben Busby; Alexander T. Dilthey (F1000Research, 2018)

Undergraduate data science degrees emphasize computer science and statistics but fall short in ethics training and domain-specific context. - Jeffrey C. Oliver; Torbet McNeil (PeerJ Comput. Sci., 2021)

carpentries/instructor-training: The Carpentries Instructor Training Februrary 2023. - Sarah M. Brown; Karen Word; Maneesha Sane; Kelly Barnes; Nathaniel Porter; Philipp Matthias Schaefer; Aleksandra Nenadic; Toby Hodges; Giordano Lipari; Andrzej Aleksander Romaniuk; Martino Sorbaro Sindaci; Aman Goel; et al. (Zenodo, 2023)