Published in: LIPIcs, Volume 369, 37th Annual Symposium on Combinatorial Pattern Matching (CPM 2026)
Dominik Köppl and Jannik Olbrich. Hardness Results on Characteristics for Elastic-Degenerate Strings. In 37th Annual Symposium on Combinatorial Pattern Matching (CPM 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 369, pp. 14:1-14:25, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)
@InProceedings{koppl_et_al:LIPIcs.CPM.2026.14,
author = {K\"{o}ppl, Dominik and Olbrich, Jannik},
title = {{Hardness Results on Characteristics for Elastic-Degenerate Strings}},
booktitle = {37th Annual Symposium on Combinatorial Pattern Matching (CPM 2026)},
pages = {14:1--14:25},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-420-8},
ISSN = {1868-8969},
year = {2026},
volume = {369},
editor = {Bille, Philip and Prezza, Nicola},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CPM.2026.14},
URN = {urn:nbn:de:0030-drops-259409},
doi = {10.4230/LIPIcs.CPM.2026.14},
annote = {Keywords: Elastic-degenerate strings, NP-hardness, longest common factor, minimal unique substring, minimal absent word, anti-power, longest previous factor}
}
Published in: LIPIcs, Volume 369, 37th Annual Symposium on Combinatorial Pattern Matching (CPM 2026)
Jannik Olbrich and Enno Ohlebusch. The TAG Array of a Multiple Sequence Alignment. In 37th Annual Symposium on Combinatorial Pattern Matching (CPM 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 369, pp. 29:1-29:14, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)
@InProceedings{olbrich_et_al:LIPIcs.CPM.2026.29,
author = {Olbrich, Jannik and Ohlebusch, Enno},
title = {{The TAG Array of a Multiple Sequence Alignment}},
booktitle = {37th Annual Symposium on Combinatorial Pattern Matching (CPM 2026)},
pages = {29:1--29:14},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-420-8},
ISSN = {1868-8969},
year = {2026},
volume = {369},
editor = {Bille, Philip and Prezza, Nicola},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CPM.2026.29},
URN = {urn:nbn:de:0030-drops-259555},
doi = {10.4230/LIPIcs.CPM.2026.29},
annote = {Keywords: Burrows-Wheeler Transform, pattern matching, index data structure, pangenomics}
}
Published in: LIPIcs, Volume 344, 25th International Conference on Algorithms for Bioinformatics (WABI 2025)
Ahsan Sanaullah, Degui Zhi, and Shaojie Zhang. An Efficient Data Structure and Algorithm for Long-Match Query in Run-Length Compressed BWT. In 25th International Conference on Algorithms for Bioinformatics (WABI 2025). Leibniz International Proceedings in Informatics (LIPIcs), Volume 344, pp. 17:1-17:25, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)
@InProceedings{sanaullah_et_al:LIPIcs.WABI.2025.17,
author = {Sanaullah, Ahsan and Zhi, Degui and Zhang, Shaojie},
title = {{An Efficient Data Structure and Algorithm for Long-Match Query in Run-Length Compressed BWT}},
booktitle = {25th International Conference on Algorithms for Bioinformatics (WABI 2025)},
pages = {17:1--17:25},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-386-7},
ISSN = {1868-8969},
year = {2025},
volume = {344},
editor = {Brejov\'{a}, Bro\v{n}a and Patro, Rob},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2025.17},
URN = {urn:nbn:de:0030-drops-239433},
doi = {10.4230/LIPIcs.WABI.2025.17},
annote = {Keywords: BWT, LEM, Long LEM, MEM, Run Length Compressed BWT, Move Data Structure, Pangenome}
}
Published in: OASIcs, Volume 132, From Strings to Graphs, and Back Again: A Festschrift for Roberto Grossi's 60th Birthday (2025)
Massimo Equi. Conditional Lower Bounds for String Matching in Labelled Graphs. In From Strings to Graphs, and Back Again: A Festschrift for Roberto Grossi's 60th Birthday. Open Access Series in Informatics (OASIcs), Volume 132, pp. 7:1-7:13, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)
@InProceedings{equi:OASIcs.Grossi.7,
author = {Equi, Massimo},
title = {{Conditional Lower Bounds for String Matching in Labelled Graphs}},
booktitle = {From Strings to Graphs, and Back Again: A Festschrift for Roberto Grossi's 60th Birthday},
pages = {7:1--7:13},
series = {Open Access Series in Informatics (OASIcs)},
ISBN = {978-3-95977-391-1},
ISSN = {2190-6807},
year = {2025},
volume = {132},
editor = {Conte, Alessio and Marino, Andrea and Rosone, Giovanna and Vitter, Jeffrey Scott},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.Grossi.7},
URN = {urn:nbn:de:0030-drops-238063},
doi = {10.4230/OASIcs.Grossi.7},
annote = {Keywords: conditional lower bounds, strong exponential time hypothesis, fine-grained complexity, string matching, graphs}
}
Published in: OASIcs, Volume 131, The Expanding World of Compressed Data: A Festschrift for Giovanni Manzini's 60th Birthday (2025)
Davide Cenzato, Zsuzsanna Lipták, Nadia Pisanti, Giovanna Rosone, and Marinella Sciortino. BWT for String Collections. In The Expanding World of Compressed Data: A Festschrift for Giovanni Manzini's 60th Birthday. Open Access Series in Informatics (OASIcs), Volume 131, pp. 3:1-3:29, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)
@InProceedings{cenzato_et_al:OASIcs.Manzini.3,
author = {Cenzato, Davide and Lipt\'{a}k, Zsuzsanna and Pisanti, Nadia and Rosone, Giovanna and Sciortino, Marinella},
title = {{BWT for String Collections}},
booktitle = {The Expanding World of Compressed Data: A Festschrift for Giovanni Manzini's 60th Birthday},
pages = {3:1--3:29},
series = {Open Access Series in Informatics (OASIcs)},
ISBN = {978-3-95977-390-4},
ISSN = {2190-6807},
year = {2025},
volume = {131},
editor = {Ferragina, Paolo and Gagie, Travis and Navarro, Gonzalo},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.Manzini.3},
URN = {urn:nbn:de:0030-drops-239113},
doi = {10.4230/OASIcs.Manzini.3},
annote = {Keywords: Burrows-Wheeler transform, Extended Burrows-Wheeler transform, compressed text indexes, text compression, string collections, bioinformatics}
}
Published in: OASIcs, Volume 131, The Expanding World of Compressed Data: A Festschrift for Giovanni Manzini's 60th Birthday (2025)
Diego Díaz-Domínguez, Lavinia Egidi, Veronica Guerrini, Felipe A. Louza, and Giovanna Rosone. Algorithms for Computing Very Large BWTs: a Short Survey. In The Expanding World of Compressed Data: A Festschrift for Giovanni Manzini's 60th Birthday. Open Access Series in Informatics (OASIcs), Volume 131, pp. 7:1-7:28, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)
@InProceedings{diazdominguez_et_al:OASIcs.Manzini.7,
author = {D{\'\i}az-Dom{\'\i}nguez, Diego and Egidi, Lavinia and Guerrini, Veronica and Louza, Felipe A. and Rosone, Giovanna},
title = {{Algorithms for Computing Very Large BWTs: a Short Survey}},
booktitle = {The Expanding World of Compressed Data: A Festschrift for Giovanni Manzini's 60th Birthday},
pages = {7:1--7:28},
series = {Open Access Series in Informatics (OASIcs)},
ISBN = {978-3-95977-390-4},
ISSN = {2190-6807},
year = {2025},
volume = {131},
editor = {Ferragina, Paolo and Gagie, Travis and Navarro, Gonzalo},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.Manzini.7},
URN = {urn:nbn:de:0030-drops-239151},
doi = {10.4230/OASIcs.Manzini.7},
annote = {Keywords: Burrows-Wheeler transform, Extended Burrows-Wheeler transform, external memory, text compression, longest common prefix}
}
Published in: OASIcs, Volume 131, The Expanding World of Compressed Data: A Festschrift for Giovanni Manzini's 60th Birthday (2025)
Jarno N. Alanko, Elena Biagi, Massimo Equi, Veli Mäkinen, Simon J. Puglisi, Nicola Rizzo, Kunihiko Sadakane, and Jouni Sirén. Graph Indexing Beyond Wheeler Graphs. In The Expanding World of Compressed Data: A Festschrift for Giovanni Manzini's 60th Birthday. Open Access Series in Informatics (OASIcs), Volume 131, pp. 13:1-13:29, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)
@InProceedings{alanko_et_al:OASIcs.Manzini.13,
author = {Alanko, Jarno N. and Biagi, Elena and Equi, Massimo and M\"{a}kinen, Veli and Puglisi, Simon J. and Rizzo, Nicola and Sadakane, Kunihiko and Sir\'{e}n, Jouni},
title = {{Graph Indexing Beyond Wheeler Graphs}},
booktitle = {The Expanding World of Compressed Data: A Festschrift for Giovanni Manzini's 60th Birthday},
pages = {13:1--13:29},
series = {Open Access Series in Informatics (OASIcs)},
ISBN = {978-3-95977-390-4},
ISSN = {2190-6807},
year = {2025},
volume = {131},
editor = {Ferragina, Paolo and Gagie, Travis and Navarro, Gonzalo},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.Manzini.13},
URN = {urn:nbn:de:0030-drops-239215},
doi = {10.4230/OASIcs.Manzini.13},
annote = {Keywords: indexing, compression, compressed data structures, string algorithms, pattern matching}
}
Published in: LIPIcs, Volume 113, 18th International Workshop on Algorithms in Bioinformatics (WABI 2018)
Ryan A. Leo Elworth, Chabrielle Allen, Travis Benedict, Peter Dulworth, and Luay Nakhleh. DGEN: A Test Statistic for Detection of General Introgression Scenarios. In 18th International Workshop on Algorithms in Bioinformatics (WABI 2018). Leibniz International Proceedings in Informatics (LIPIcs), Volume 113, pp. 19:1-19:13, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2018)
@InProceedings{elworth_et_al:LIPIcs.WABI.2018.19,
author = {Elworth, Ryan A. Leo and Allen, Chabrielle and Benedict, Travis and Dulworth, Peter and Nakhleh, Luay},
title = {{DGEN: A Test Statistic for Detection of General Introgression Scenarios}},
booktitle = {18th International Workshop on Algorithms in Bioinformatics (WABI 2018)},
pages = {19:1--19:13},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-082-8},
ISSN = {1868-8969},
year = {2018},
volume = {113},
editor = {Parida, Laxmi and Ukkonen, Esko},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2018.19},
URN = {urn:nbn:de:0030-drops-93218},
doi = {10.4230/LIPIcs.WABI.2018.19},
annote = {Keywords: Introgression, genealogies, phylogenetic networks}
}
Published in: LIPIcs, Volume 110, 29th International Conference on Probabilistic, Combinatorial and Asymptotic Methods for the Analysis of Algorithms (AofA 2018)
Bret Benesh, Jamylle Carter, Deidra A. Coleman, Douglas G. Crabill, Jack H. Good, Michael A. Smith, Jennifer Travis, and Mark Daniel Ward. Periods in Subtraction Games (Keynote Speakers). In 29th International Conference on Probabilistic, Combinatorial and Asymptotic Methods for the Analysis of Algorithms (AofA 2018). Leibniz International Proceedings in Informatics (LIPIcs), Volume 110, pp. 8:1-8:3, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2018)
@InProceedings{benesh_et_al:LIPIcs.AofA.2018.8,
author = {Benesh, Bret and Carter, Jamylle and Coleman, Deidra A. and Crabill, Douglas G. and Good, Jack H. and Smith, Michael A. and Travis, Jennifer and Ward, Mark Daniel},
title = {{Periods in Subtraction Games}},
booktitle = {29th International Conference on Probabilistic, Combinatorial and Asymptotic Methods for the Analysis of Algorithms (AofA 2018)},
pages = {8:1--8:3},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-078-1},
ISSN = {1868-8969},
year = {2018},
volume = {110},
editor = {Fill, James Allen and Ward, Mark Daniel},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.AofA.2018.8},
URN = {urn:nbn:de:0030-drops-89015},
doi = {10.4230/LIPIcs.AofA.2018.8},
annote = {Keywords: combinatorial games, subtraction games, periods, asymptotic structure}
}