@Proceedings{pissis_et_al:LIPIcs.WABI.2024,
title = {{LIPIcs, Volume 312, WABI 2024, Complete Volume}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {1--454},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024},
URN = {urn:nbn:de:0030-drops-206430},
doi = {10.4230/LIPIcs.WABI.2024},
annote = {Keywords: LIPIcs, Volume 312, WABI 2024, Complete Volume}
}
@InProceedings{pissis_et_al:LIPIcs.WABI.2024.0,
author = {Pissis, Solon P. and Sung, Wing-Kin},
title = {{Front Matter, Table of Contents, Preface, Conference Organization}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {0:i--0:xii},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.0},
URN = {urn:nbn:de:0030-drops-206447},
doi = {10.4230/LIPIcs.WABI.2024.0},
annote = {Keywords: Front Matter, Table of Contents, Preface, Conference Organization}
}
@InProceedings{vinar:LIPIcs.WABI.2024.1,
author = {Vina\v{r}, Tom\'{a}\v{s}},
title = {{Bioinformatics of Pathogens}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {1:1--1:2},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.1},
URN = {urn:nbn:de:0030-drops-206455},
doi = {10.4230/LIPIcs.WABI.2024.1},
annote = {Keywords: sequence analysis, genome assembly, neural networks, probabilistic modeling}
}
@InProceedings{cunha_et_al:LIPIcs.WABI.2024.2,
author = {Cunha, Lu{\'\i}s and Sau, Ignasi and Souza, U\'{e}verton},
title = {{On the Complexity of the Median and Closest Permutation Problems}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {2:1--2:23},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.2},
URN = {urn:nbn:de:0030-drops-206468},
doi = {10.4230/LIPIcs.WABI.2024.2},
annote = {Keywords: Median problem, Closest problem, Genome rearrangements, Parameterized complexity}
}
@InProceedings{chan:LIPIcs.WABI.2024.3,
author = {Chan, Yao-ban},
title = {{An Efficient Algorithm for the Reconciliation of a Gene Network and Species Tree}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {3:1--3:17},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.3},
URN = {urn:nbn:de:0030-drops-206472},
doi = {10.4230/LIPIcs.WABI.2024.3},
annote = {Keywords: Reconciliation, recombination, paralog exchange, phylogenetic network, gene duplication, gene loss}
}
@InProceedings{hwang_et_al:LIPIcs.WABI.2024.4,
author = {Hwang, Stephen and Brown, Nathaniel K. and Ahmed, Omar Y. and Jenike, Katharine M. and Kovaka, Sam and Schatz, Michael C. and Langmead, Ben},
title = {{MEM-Based Pangenome Indexing for k-mer Queries}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {4:1--4:17},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.4},
URN = {urn:nbn:de:0030-drops-206482},
doi = {10.4230/LIPIcs.WABI.2024.4},
annote = {Keywords: Pangenomics, Comparative genomics, Compressed indexing}
}
@InProceedings{hubner_et_al:LIPIcs.WABI.2024.5,
author = {H\"{u}bner, Lukas and Stamatakis, Alexandros},
title = {{Memoization on Shared Subtrees Accelerates Computations on Genealogical Forests}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {5:1--5:22},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.5},
URN = {urn:nbn:de:0030-drops-206499},
doi = {10.4230/LIPIcs.WABI.2024.5},
annote = {Keywords: bioinformatics, population genetics, algorithms}
}
@InProceedings{hera_et_al:LIPIcs.WABI.2024.6,
author = {Hera, Mahmudur Rahman and Koslicki, David},
title = {{Cosine Similarity Estimation Using FracMinHash: Theoretical Analysis, Safety Conditions, and Implementation}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {6:1--6:16},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.6},
URN = {urn:nbn:de:0030-drops-206502},
doi = {10.4230/LIPIcs.WABI.2024.6},
annote = {Keywords: Hashing, sketching, FracMinHash, Min-Hash, k-mer, similarity, theory}
}
@InProceedings{qi_et_al:LIPIcs.WABI.2024.7,
author = {Qi, Yuanyuan and El-Kebir, Mohammed},
title = {{Sapling: Inferring and Summarizing Tumor Phylogenies from Bulk Data Using Backbone Trees}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {7:1--7:19},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.7},
URN = {urn:nbn:de:0030-drops-206518},
doi = {10.4230/LIPIcs.WABI.2024.7},
annote = {Keywords: Cancer, intra-tumor heterogeneity, consensus, maximum agreement}
}
@InProceedings{schmidt_et_al:LIPIcs.WABI.2024.8,
author = {Schmidt, Sebastian and Toivonen, Santeri and Medvedev, Paul and Tomescu, Alexandru I.},
title = {{Applying the Safe-And-Complete Framework to Practical Genome Assembly}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {8:1--8:16},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.8},
URN = {urn:nbn:de:0030-drops-206520},
doi = {10.4230/LIPIcs.WABI.2024.8},
annote = {Keywords: Genome assembly, Omnitigs, Safe-and-complete framework, graph algorithm, HiFi sequencing data, Assembly evaluation}
}
@InProceedings{urata_et_al:LIPIcs.WABI.2024.9,
author = {Urata, Tsuyoshi and Yokoyama, Manato and Hayamizu, Momoko},
title = {{Orientability of Undirected Phylogenetic Networks to a Desired Class: Practical Algorithms and Application to Tree-Child Orientation}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {9:1--9:17},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.9},
URN = {urn:nbn:de:0030-drops-206531},
doi = {10.4230/LIPIcs.WABI.2024.9},
annote = {Keywords: Phylogenetic Networks, Tree-Child Networks, Graph Orientation Algorithms}
}
@InProceedings{depuydt_et_al:LIPIcs.WABI.2024.10,
author = {Depuydt, Lore and Renders, Luca and Van de Vyver, Simon and Veys, Lennart and Gagie, Travis and Fostier, Jan},
title = {{b-move: Faster Bidirectional Character Extensions in a Run-Length Compressed Index}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {10:1--10:18},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.10},
URN = {urn:nbn:de:0030-drops-206546},
doi = {10.4230/LIPIcs.WABI.2024.10},
annote = {Keywords: Pan-genomics, FM-index, r-index, Move Structure, Bidirectional Search, Approximate Pattern Matching, Lossless Alignment, Cache Efficiency}
}
@InProceedings{grootkoerkamp_et_al:LIPIcs.WABI.2024.11,
author = {Groot Koerkamp, Ragnar and Pibiri, Giulio Ermanno},
title = {{The mod-minimizer: A Simple and Efficient Sampling Algorithm for Long k-mers}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {11:1--11:23},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.11},
URN = {urn:nbn:de:0030-drops-206552},
doi = {10.4230/LIPIcs.WABI.2024.11},
annote = {Keywords: Minimizers, Randomized algorithms, Sketching, Hashing}
}
@InProceedings{bohnenkamper_et_al:LIPIcs.WABI.2024.12,
author = {Bohnenk\"{a}mper, Leonard and Stoye, Jens and D\"{o}rr, Daniel},
title = {{Reconstructing Rearrangement Phylogenies of Natural Genomes}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {12:1--12:16},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.12},
URN = {urn:nbn:de:0030-drops-206564},
doi = {10.4230/LIPIcs.WABI.2024.12},
annote = {Keywords: genome rearrangement, ancestral reconstruction, small parsimony, integer linear programming, double-cut-and-join}
}
@InProceedings{abrar_et_al:LIPIcs.WABI.2024.13,
author = {Abrar, Md. Hasin and Medvedev, Paul},
title = {{PLA-index: A k-mer Index Exploiting Rank Curve Linearity}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {13:1--13:18},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.13},
URN = {urn:nbn:de:0030-drops-206578},
doi = {10.4230/LIPIcs.WABI.2024.13},
annote = {Keywords: K-mer index, Piece-wise linear approximation, Learned index}
}
@InProceedings{ascone_et_al:LIPIcs.WABI.2024.14,
author = {Ascone, Rocco and Bernardini, Giulia and Conte, Alessio and Equi, Massimo and Gabory, Esteban and Grossi, Roberto and Pisanti, Nadia},
title = {{A Unifying Taxonomy of Pattern Matching in Degenerate Strings and Founder Graphs}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {14:1--14:21},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.14},
URN = {urn:nbn:de:0030-drops-206586},
doi = {10.4230/LIPIcs.WABI.2024.14},
annote = {Keywords: Pangenomics, pattern matching, degenerate string, founder graph, fine-grained complexity}
}
@InProceedings{zentgraf_et_al:LIPIcs.WABI.2024.15,
author = {Zentgraf, Jens and Rahmann, Sven},
title = {{Swiftly Identifying Strongly Unique k-Mers}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {15:1--15:15},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.15},
URN = {urn:nbn:de:0030-drops-206593},
doi = {10.4230/LIPIcs.WABI.2024.15},
annote = {Keywords: k-mer, Hamming distance, strong uniqueness, parallelization, algorithm engineering}
}
@InProceedings{marchand_et_al:LIPIcs.WABI.2024.16,
author = {Marchand, Bertrand and Tahiri, Nadia and Tremblay-Savard, Olivier and Lafond, Manuel},
title = {{Finding Maximum Common Contractions Between Phylogenetic Networks}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {16:1--16:24},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.16},
URN = {urn:nbn:de:0030-drops-206606},
doi = {10.4230/LIPIcs.WABI.2024.16},
annote = {Keywords: Phylogenetic networks, contractions, algorithms, weakly galled trees}
}
@InProceedings{grootkoerkamp:LIPIcs.WABI.2024.17,
author = {Groot Koerkamp, Ragnar},
title = {{A*PA2: Up to 19× Faster Exact Global Alignment}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {17:1--17:25},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.17},
URN = {urn:nbn:de:0030-drops-206610},
doi = {10.4230/LIPIcs.WABI.2024.17},
annote = {Keywords: Edit distance, Pairwise alignment, A*, Shortest path, Dynamic programming}
}
@InProceedings{boehmer_et_al:LIPIcs.WABI.2024.18,
author = {Boehmer, Kimon and Berkemer, Sarah J. and Will, Sebastian and Ponty, Yann},
title = {{RNA Triplet Repeats: Improved Algorithms for Structure Prediction and Interactions}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {18:1--18:23},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.18},
URN = {urn:nbn:de:0030-drops-206625},
doi = {10.4230/LIPIcs.WABI.2024.18},
annote = {Keywords: RNA folding, RNA interactions, triplet repeats, dynamic programming, NP-hardness}
}
@InProceedings{boury_et_al:LIPIcs.WABI.2024.19,
author = {Boury, Th\'{e}o and Bulteau, Laurent and Ponty, Yann},
title = {{RNA Inverse Folding Can Be Solved in Linear Time for Structures Without Isolated Stacks or Base Pairs}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {19:1--19:23},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.19},
URN = {urn:nbn:de:0030-drops-206632},
doi = {10.4230/LIPIcs.WABI.2024.19},
annote = {Keywords: RNA structure, String Design, Parameterized Complexity, Uniform Sampling}
}
@InProceedings{lopezsanchez_et_al:LIPIcs.WABI.2024.20,
author = {L\'{o}pez S\'{a}nchez, Alitzel and Ram{\'\i}rez-Rafael, Jos\'{e} Antonio and Flores-Lamas, Alejandro and Hern\'{a}ndez-Rosales, Maribel and Lafond, Manuel},
title = {{The Path-Label Reconciliation (PLR) Dissimilarity Measure for Gene Trees}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {20:1--20:21},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.20},
URN = {urn:nbn:de:0030-drops-206645},
doi = {10.4230/LIPIcs.WABI.2024.20},
annote = {Keywords: Reconciliation, gene trees, species trees, evolutionary scenarios}
}
@InProceedings{buzzega_et_al:LIPIcs.WABI.2024.21,
author = {Buzzega, Giovanni and Conte, Alessio and Grossi, Roberto and Punzi, Giulia},
title = {{McDag: Indexing Maximal Common Subsequences in Practice}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {21:1--21:18},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.21},
URN = {urn:nbn:de:0030-drops-206650},
doi = {10.4230/LIPIcs.WABI.2024.21},
annote = {Keywords: Index data structure, DAG, Common subsequence, Inclusion-wise maximality, LCS}
}
@InProceedings{zang_et_al:LIPIcs.WABI.2024.22,
author = {Zang, Xiaofei Carl and Li, Xiang and Metcalfe, Kyle and Ben-Yehezkel, Tuval and Kelley, Ryan and Shao, Mingfu},
title = {{Anchorage Accurately Assembles Anchor-Flanked Synthetic Long Reads}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {22:1--22:17},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.22},
URN = {urn:nbn:de:0030-drops-206660},
doi = {10.4230/LIPIcs.WABI.2024.22},
annote = {Keywords: Genome assembly, de Bruijn graph, synthetic long reads, anchor-guided assembly, LoopSeq}
}
@InProceedings{cicherski_et_al:LIPIcs.WABI.2024.23,
author = {Cicherski, Adam and Lisiecka, Anna and Dojer, Norbert},
title = {{AlfaPang: Alignment Free Algorithm for Pangenome Graph Construction}},
booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
pages = {23:1--23:18},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-340-9},
ISSN = {1868-8969},
year = {2024},
volume = {312},
editor = {Pissis, Solon P. and Sung, Wing-Kin},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.23},
URN = {urn:nbn:de:0030-drops-206673},
doi = {10.4230/LIPIcs.WABI.2024.23},
annote = {Keywords: pangenome, variation graph, genome alignment, population genomics}
}
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