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@article{DBLP:journals/almob/ArastiM24,
  author       = {Shayesteh Arasti and
                  Siavash Mirarab},
  title        = {Median quartet tree search algorithms using optimal subtree prune
                  and regraft},
  journal      = {Algorithms Mol. Biol.},
  volume       = {19},
  number       = {1},
  pages        = {12},
  year         = {2024},
  url          = {https://doi.org/10.1186/s13015-024-00257-3},
  doi          = {10.1186/S13015-024-00257-3},
  timestamp    = {Tue, 02 Apr 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/almob/ArastiM24.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/almob/Bohnenkamper24,
  author       = {Leonard Bohnenk{\"{a}}mper},
  title        = {Recombinations, chains and caps: resolving problems with the DCJ-indel
                  model},
  journal      = {Algorithms Mol. Biol.},
  volume       = {19},
  number       = {1},
  pages        = {8},
  year         = {2024},
  url          = {https://doi.org/10.1186/s13015-024-00253-7},
  doi          = {10.1186/S13015-024-00253-7},
  timestamp    = {Tue, 07 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/almob/Bohnenkamper24.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/almob/BragaBKS24,
  author       = {Mar{\'{\i}}lia D. V. Braga and
                  Leonie R. Brockmann and
                  Katharina Klerx and
                  Jens Stoye},
  title        = {Investigating the complexity of the double distance problems},
  journal      = {Algorithms Mol. Biol.},
  volume       = {19},
  number       = {1},
  pages        = {1},
  year         = {2024},
  url          = {https://doi.org/10.1186/s13015-023-00246-y},
  doi          = {10.1186/S13015-023-00246-Y},
  timestamp    = {Wed, 10 Jan 2024 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/almob/BragaBKS24.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/almob/DaiRHM24,
  author       = {Junyan Dai and
                  Tobias Rubel and
                  Yunheng Han and
                  Erin K. Molloy},
  title        = {Dollo-CDP: a polynomial-time algorithm for the clade-constrained large
                  Dollo parsimony problem},
  journal      = {Algorithms Mol. Biol.},
  volume       = {19},
  number       = {1},
  pages        = {2},
  year         = {2024},
  url          = {https://doi.org/10.1186/s13015-023-00249-9},
  doi          = {10.1186/S13015-023-00249-9},
  timestamp    = {Tue, 07 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/almob/DaiRHM24.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/almob/DiazDominguezLS24,
  author       = {Diego D{\'{\i}}az{-}Dom{\'{\i}}nguez and
                  Miika Leinonen and
                  Leena Salmela},
  title        = {Space-efficient computation of k-mer dictionaries for large values
                  of k},
  journal      = {Algorithms Mol. Biol.},
  volume       = {19},
  number       = {1},
  pages        = {14},
  year         = {2024},
  url          = {https://doi.org/10.1186/s13015-024-00259-1},
  doi          = {10.1186/S13015-024-00259-1},
  timestamp    = {Tue, 07 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/almob/DiazDominguezLS24.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/almob/EpainA24,
  author       = {Victor Epain and
                  Rumen Andonov},
  title        = {Global exact optimisations for chloroplast structural haplotype scaffolding},
  journal      = {Algorithms Mol. Biol.},
  volume       = {19},
  number       = {1},
  pages        = {5},
  year         = {2024},
  url          = {https://doi.org/10.1186/s13015-023-00243-1},
  doi          = {10.1186/S13015-023-00243-1},
  timestamp    = {Sun, 25 Feb 2024 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/almob/EpainA24.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/almob/FanKSPP24,
  author       = {Jason Fan and
                  Jamshed Khan and
                  Noor Pratap Singh and
                  Giulio Ermanno Pibiri and
                  Rob Patro},
  title        = {Fulgor: a fast and compact k-mer index for large-scale matching and
                  color queries},
  journal      = {Algorithms Mol. Biol.},
  volume       = {19},
  number       = {1},
  pages        = {3},
  year         = {2024},
  url          = {https://doi.org/10.1186/s13015-024-00251-9},
  doi          = {10.1186/S13015-024-00251-9},
  timestamp    = {Fri, 09 Feb 2024 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/almob/FanKSPP24.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/almob/GoreckiRMP24,
  author       = {Pawel G{\'{o}}recki and
                  Natalia Rutecka and
                  Agnieszka Mykowiecka and
                  Jaroslaw Paszek},
  title        = {Unifying duplication episode clustering and gene-species mapping inference},
  journal      = {Algorithms Mol. Biol.},
  volume       = {19},
  number       = {1},
  pages        = {7},
  year         = {2024},
  url          = {https://doi.org/10.1186/s13015-024-00252-8},
  doi          = {10.1186/S13015-024-00252-8},
  timestamp    = {Sun, 25 Feb 2024 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/almob/GoreckiRMP24.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/almob/GrayWJ24,
  author       = {Mateo Gray and
                  Sebastian Will and
                  Hosna Jabbari},
  title        = {SparseRNAfolD: optimized sparse {RNA} pseudoknot-free folding with
                  dangle consideration},
  journal      = {Algorithms Mol. Biol.},
  volume       = {19},
  number       = {1},
  pages        = {9},
  year         = {2024},
  url          = {https://doi.org/10.1186/s13015-024-00256-4},
  doi          = {10.1186/S13015-024-00256-4},
  timestamp    = {Tue, 02 Apr 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/almob/GrayWJ24.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/almob/HongOKBBG24,
  author       = {Aaron Hong and
                  Marco Oliva and
                  Dominik K{\"{o}}ppl and
                  Hideo Bannai and
                  Christina Boucher and
                  Travis Gagie},
  title        = {Pfp-fm: an accelerated FM-index},
  journal      = {Algorithms Mol. Biol.},
  volume       = {19},
  number       = {1},
  pages        = {15},
  year         = {2024},
  url          = {https://doi.org/10.1186/s13015-024-00260-8},
  doi          = {10.1186/S13015-024-00260-8},
  timestamp    = {Mon, 22 Apr 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/almob/HongOKBBG24.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/almob/KhanRMDP24,
  author       = {Jamshed Khan and
                  Tobias Rubel and
                  Erin K. Molloy and
                  Laxman Dhulipala and
                  Rob Patro},
  title        = {Fast, parallel, and cache-friendly suffix array construction},
  journal      = {Algorithms Mol. Biol.},
  volume       = {19},
  number       = {1},
  pages        = {16},
  year         = {2024},
  url          = {https://doi.org/10.1186/s13015-024-00263-5},
  doi          = {10.1186/S13015-024-00263-5},
  timestamp    = {Wed, 15 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/almob/KhanRMDP24.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/almob/LiptakMP24,
  author       = {Zsuzsanna Lipt{\'{a}}k and
                  Francesco Masillo and
                  Simon J. Puglisi},
  title        = {Suffix sorting via matching statistics},
  journal      = {Algorithms Mol. Biol.},
  volume       = {19},
  number       = {1},
  pages        = {11},
  year         = {2024},
  url          = {https://doi.org/10.1186/s13015-023-00245-z},
  doi          = {10.1186/S13015-023-00245-Z},
  timestamp    = {Mon, 15 Apr 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/almob/LiptakMP24.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/almob/LiuEYON24,
  author       = {Yushu Liu and
                  Mohammad Amin Edrisi and
                  Zhi Yan and
                  Huw A. Ogilvie and
                  Luay Nakhleh},
  title        = {NestedBD: Bayesian inference of phylogenetic trees from single-cell
                  copy number profiles under a birth-death model},
  journal      = {Algorithms Mol. Biol.},
  volume       = {19},
  number       = {1},
  pages        = {18},
  year         = {2024},
  url          = {https://doi.org/10.1186/s13015-024-00264-4},
  doi          = {10.1186/S13015-024-00264-4},
  timestamp    = {Fri, 17 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/almob/LiuEYON24.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/almob/QiuSK24,
  author       = {Yutong Qiu and
                  Yihang Shen and
                  Carl Kingsford},
  title        = {Revisiting the complexity of and algorithms for the graph traversal
                  edit distance and its variants},
  journal      = {Algorithms Mol. Biol.},
  volume       = {19},
  number       = {1},
  pages        = {17},
  year         = {2024},
  url          = {https://doi.org/10.1186/s13015-024-00262-6},
  doi          = {10.1186/S13015-024-00262-6},
  timestamp    = {Wed, 15 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/almob/QiuSK24.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/almob/RajputCJ24,
  author       = {Jyotshna Rajput and
                  Ghanshyam Chandra and
                  Chirag Jain},
  title        = {Co-linear chaining on pangenome graphs},
  journal      = {Algorithms Mol. Biol.},
  volume       = {19},
  number       = {1},
  pages        = {4},
  year         = {2024},
  url          = {https://doi.org/10.1186/s13015-024-00250-w},
  doi          = {10.1186/S13015-024-00250-W},
  timestamp    = {Fri, 09 Feb 2024 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/almob/RajputCJ24.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/almob/RizzoCM24,
  author       = {Nicola Rizzo and
                  Manuel C{\'{a}}ceres and
                  Veli M{\"{a}}kinen},
  title        = {Finding maximal exact matches in graphs},
  journal      = {Algorithms Mol. Biol.},
  volume       = {19},
  number       = {1},
  pages        = {10},
  year         = {2024},
  url          = {https://doi.org/10.1186/s13015-024-00255-5},
  doi          = {10.1186/S13015-024-00255-5},
  timestamp    = {Sat, 04 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/almob/RizzoCM24.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/almob/SanchezL24,
  author       = {Alitzel L{\'{o}}pez S{\'{a}}nchez and
                  Manuel Lafond},
  title        = {Predicting horizontal gene transfers with perfect transfer networks},
  journal      = {Algorithms Mol. Biol.},
  volume       = {19},
  number       = {1},
  pages        = {6},
  year         = {2024},
  url          = {https://doi.org/10.1186/s13015-023-00242-2},
  doi          = {10.1186/S13015-023-00242-2},
  timestamp    = {Sun, 25 Feb 2024 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/almob/SanchezL24.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/almob/SchulzM24,
  author       = {Tizian Schulz and
                  Paul Medvedev},
  title        = {{ESKEMAP:} exact sketch-based read mapping},
  journal      = {Algorithms Mol. Biol.},
  volume       = {19},
  number       = {1},
  pages        = {19},
  year         = {2024},
  url          = {https://doi.org/10.1186/s13015-024-00261-7},
  doi          = {10.1186/S13015-024-00261-7},
  timestamp    = {Wed, 15 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/almob/SchulzM24.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/almob/YaoMBPW24,
  author       = {Hua{-}Ting Yao and
                  Bertrand Marchand and
                  Sarah J. Berkemer and
                  Yann Ponty and
                  Sebastian Will},
  title        = {Infrared: a declarative tree decomposition-powered framework for bioinformatics},
  journal      = {Algorithms Mol. Biol.},
  volume       = {19},
  number       = {1},
  pages        = {13},
  year         = {2024},
  url          = {https://doi.org/10.1186/s13015-024-00258-2},
  doi          = {10.1186/S13015-024-00258-2},
  timestamp    = {Tue, 07 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/almob/YaoMBPW24.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
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