Describing the Local Structure of Sequence Graphs. - Yohei Rosen; Jordan Eizenga; Benedict Paten (AlCoB, 2017)

Modelling haplotypes with respect to reference cohort variation graphs. - Yohei Rosen; Jordan Eizenga; Benedict Paten (Bioinform., 2017)

A Flow Procedure for Linearization of Genome Sequence Graphs. - David Haussler; Maciej Smuga-Otto; Jordan M. Eizenga; Benedict Paten; Adam M. Novak; Sergei Nikitin; Maria Zueva; Dmitrii Miagkov (J. Comput. Biol., 2018)

Superbubbles, Ultrabubbles, and Cacti. - Benedict Paten; Jordan M. Eizenga; Yohei M. Rosen; Adam M. Novak; Erik Garrison; Glenn Hickey (J. Comput. Biol., 2018)

Distance indexing and seed clustering in sequence graphs. - Xian Chang; Jordan Eizenga; Adam M. Novak; Jouni Sirén; Benedict Paten (Bioinform., 2020)

Walk-Preserving Transformation of Overlapped Sequence Graphs into Blunt Sequence Graphs with GetBlunted. - Jordan M. Eizenga; Ryan Lorig-Roach; Melissa M. Meredith; Benedict Paten (CiE, 2021)

Efficient dynamic variation graphs. - Jordan M. Eizenga; Adam M. Novak; Emily Kobayashi; Flavia Villani; Cecilia Cisar; Simon Heumos; Glenn Hickey; Vincenza Colonna; Benedict Paten; Erik Garrison (Bioinform., 2021)

Optimal gap-affine alignment in O(s) space. - Santiago Marco-Sola; Jordan M. Eizenga; Andrea Guarracino; Benedict Paten; Erik Garrison; Miquel Moretó (Bioinform., 2023)