| 2023 | Bridging Disparate Views on the DCJ-Indel Model for a Capping-Free Solution to the Natural Distance Problem. | Leonard Bohnenkmper |
| 2023 | Optimal Subtree Prune and Regraft for Quartet Score in Sub-Quadratic Time. | Shayesteh Arasti, Siavash Mirarab |
| 2023 | Simultaneous Reconstruction of Duplication Episodes and Gene-Species Mappings. | Pawel Grecki, Natalia Rutecka, Agnieszka Mykowiecka, Jaroslaw Paszek |
| 2023 | Finding Maximal Exact Matches in Graphs. | Nicola Rizzo, Manuel Cceres, Veli Mkinen |
| 2022 | Fast Gapped k-mer Counting with Subdivided Multi-Way Bucketed Cuckoo Hash Tables. | Jens Zentgraf, Sven Rahmann |
| 2022 | WGSUniFrac: Applying UniFrac Metric to Whole Genome Shotgun Data. | Wei Wei, David Koslicki |
| 2022 | Accurate k-mer Classification Using Read Profiles. | Yoshihiko Suzuki, Gene Myers |
| 2022 | A Maximum Parsimony Principle for Multichromosomal Complex Genome Rearrangements. | Pijus Simonaitis, Benjamin J. Raphael |
| 2022 | Efficient Reconciliation of Genomic Datasets of High Similarity. | Yoshihiro Shibuya, Djamal Belazzougui, Gregory Kucherov |
| 2022 | Eulertigs: Minimum Plain Text Representation of k-mer Sets Without Repetitions in Linear Time. | Sebastian S. Schmidt, Jarno N. Alanko |
| 2022 | Predicting Horizontal Gene Transfers with Perfect Transfer Networks. | Alitzel Lpez Snchez, Manuel Lafond |
| 2022 | Haplotype Threading Using the Positional Burrows-Wheeler Transform. | Ahsan Sanaullah, Degui Zhi, Shaoije Zhang |
| 2022 | Efficient Solutions to Biological Problems Using de Bruijn Graphs (Invited Talk). | Leena Salmela |
| 2022 | Gene Orthology Inference via Large-Scale Rearrangements for Partially Assembled Genomes. | Diego P. Rubert, Marlia D. V. Braga |
| 2022 | On Weighted k-mer Dictionaries. | Giulio Ermanno Pibiri |
| 2022 | New Algorithms for Structure Informed Genome Rearrangement. | Eden Ozery, Meirav Zehavi, Michal Ziv-Ukelson |
| 2022 | Pangenomic Genotyping with the Marker Array. | Taher Mun, Naga Sai Kavya Vaddadi, Ben Langmead |
| 2022 | Automated Design of Dynamic Programming Schemes for RNA Folding with Pseudoknots. | Bertrand Marchand, Sebastian Will, Sarah J. Berkemer, Laurent Bulteau, Yann Ponty |
| 2022 | Fast and Accurate Species Trees from Weighted Internode Distances. | Baqiao Liu, Tandy J. Warnow |
| 2022 | Suffix Sorting via Matching Statistics. | Zsuzsanna Liptk, Francesco Masillo, Simon J. Puglisi |
| 2022 | phyBWT: Alignment-Free Phylogeny via eBWT Positional Clustering. | Veronica Guerrini, Alessio Conte, Roberto Grossi, Gianni Liti, Giovanna Rosone, Lorenzo Tattini |
| 2022 | Prefix-Free Parsing for Building Large Tunnelled Wheeler Graphs. | Adrin Goga, Andrej Balz |
| 2022 | Feasibility of Flow Decomposition with Subpath Constraints in Linear Time. | Daniel Gibney, Sharma V. Thankachan, Srinivas Aluru |
| 2022 | Non-Binary Tree Reconciliation with Endosymbiotic Gene Transfer. | Mathieu Gascon, Nadia El-Mabrouk |
| 2022 | Locality-Sensitive Bucketing Functions for the Edit Distance. | Ke Chen, Mingfu Shao |