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@article{DBLP:journals/almob/BernardiniIJS23,
author = {Giulia Bernardini and
Leo van Iersel and
Esther Julien and
Leen Stougie},
title = {Constructing phylogenetic networks via cherry picking and machine
learning},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {13},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00233-3},
doi = {10.1186/S13015-023-00233-3},
timestamp = {Sun, 12 Nov 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/almob/BernardiniIJS23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/BonnetMD23,
author = {Konstantinn Bonnet and
Tobias Marschall and
Daniel Doerr},
title = {Constructing founder sets under allelic and non-allelic homologous
recombination},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {15},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00241-3},
doi = {10.1186/S13015-023-00241-3},
timestamp = {Wed, 11 Oct 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/almob/BonnetMD23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/BonnetMD23a,
author = {Konstantinn Bonnet and
Tobias Marschall and
Daniel Doerr},
title = {Correction: Constructing founder sets under allelic and non-allelic
homologous recombination},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {20},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00244-0},
doi = {10.1186/S13015-023-00244-0},
timestamp = {Thu, 21 Dec 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/almob/BonnetMD23a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/ChenS23,
author = {Ke Chen and
Mingfu Shao},
title = {Locality-sensitive bucketing functions for the edit distance},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {7},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00234-2},
doi = {10.1186/S13015-023-00234-2},
timestamp = {Sun, 06 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/almob/ChenS23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/FiliHHKTH23,
author = {Mohammad Fili and
Guiping Hu and
Changze Han and
Alexa Kort and
John Trettin and
Hillel Haim},
title = {A classification algorithm based on dynamic ensemble selection to
predict mutational patterns of the envelope protein in HIV-infected
patients},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {4},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00228-0},
doi = {10.1186/S13015-023-00228-0},
timestamp = {Mon, 03 Jul 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/almob/FiliHHKTH23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/GasconE23,
author = {Mathieu Gascon and
Nadia El{-}Mabrouk},
title = {On the complexity of non-binary tree reconciliation with endosymbiotic
gene transfer},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {9},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00231-5},
doi = {10.1186/S13015-023-00231-5},
timestamp = {Sun, 06 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/almob/GasconE23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/GuerriniCGLRT23,
author = {Veronica Guerrini and
Alessio Conte and
Roberto Grossi and
Gianni Liti and
Giovanna Rosone and
Lorenzo Tattini},
title = {phyBWT2: phylogeny reconstruction via eBWT positional clustering},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {11},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00232-4},
doi = {10.1186/S13015-023-00232-4},
timestamp = {Tue, 07 May 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/almob/GuerriniCGLRT23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/HanM23,
author = {Yunheng Han and
Erin K. Molloy},
title = {Quartets enable statistically consistent estimation of cell lineage
trees under an unbiased error and missingness model},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {19},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00248-w},
doi = {10.1186/S13015-023-00248-W},
timestamp = {Mon, 05 Feb 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/almob/HanM23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/JinT23,
author = {Yifan Jin and
Jonathan Terhorst},
title = {The solution surface of the Li-Stephens haplotype copying model},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {12},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00237-z},
doi = {10.1186/S13015-023-00237-Z},
timestamp = {Sat, 19 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/almob/JinT23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/JunNJRKFZSM23,
author = {Seong{-}Hwan Jun and
Hassan Nasif and
Chris Jennings{-}Shaffer and
David H. Rich and
Anna Kooperberg and
Mathieu Fourment and
Cheng Zhang and
Marc A. Suchard and
Frederick A. Matsen IV},
title = {A topology-marginal composite likelihood via a generalized phylogenetic
pruning algorithm},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {10},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00235-1},
doi = {10.1186/S13015-023-00235-1},
timestamp = {Sun, 06 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/almob/JunNJRKFZSM23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/LiuW23,
author = {Baqiao Liu and
Tandy J. Warnow},
title = {Weighted {ASTRID:} fast and accurate species trees from weighted internode
distances},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {6},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00230-6},
doi = {10.1186/S13015-023-00230-6},
timestamp = {Sun, 06 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/almob/LiuW23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/MarchandWBPB23,
author = {Bertrand Marchand and
Sebastian Will and
Sarah J. Berkemer and
Yann Ponty and
Laurent Bulteau},
title = {Automated design of dynamic programming schemes for {RNA} folding
with pseudoknots},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {18},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00229-z},
doi = {10.1186/S13015-023-00229-Z},
timestamp = {Tue, 07 May 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/almob/MarchandWBPB23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/MathurR23,
author = {Shaili Mathur and
Noah A. Rosenberg},
title = {All galls are divided into three or more parts: recursive enumeration
of labeled histories for galled trees},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {1},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00224-4},
doi = {10.1186/S13015-023-00224-4},
timestamp = {Tue, 21 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/almob/MathurR23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/MunKL23,
author = {Taher Mun and
Naga Sai Kavya Vaddadi and
Ben Langmead},
title = {Pangenomic genotyping with the marker array},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {2},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00225-3},
doi = {10.1186/S13015-023-00225-3},
timestamp = {Wed, 18 Oct 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/almob/MunKL23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/OzeriZZ23,
author = {Eden Ozeri and
Meirav Zehavi and
Michal Ziv{-}Ukelson},
title = {New algorithms for structure informed genome rearrangement},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {17},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00239-x},
doi = {10.1186/S13015-023-00239-X},
timestamp = {Thu, 21 Dec 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/almob/OzeriZZ23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/Pibiri23,
author = {Giulio Ermanno Pibiri},
title = {On weighted k-mer dictionaries},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {3},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00226-2},
doi = {10.1186/S13015-023-00226-2},
timestamp = {Mon, 03 Jul 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/almob/Pibiri23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/RubertB23,
author = {Diego P. Rubert and
Mar{\'{\i}}lia D. V. Braga},
title = {Efficient gene orthology inference via large-scale rearrangements},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {14},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00238-y},
doi = {10.1186/S13015-023-00238-Y},
timestamp = {Sun, 12 Nov 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/almob/RubertB23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/SchallerHLSWH23,
author = {David Schaller and
Tom Hartmann and
Manuel Lafond and
Peter F. Stadler and
Nicolas Wieseke and
Marc Hellmuth},
title = {Relative timing information and orthology in evolutionary scenarios},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {16},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00240-4},
doi = {10.1186/S13015-023-00240-4},
timestamp = {Mon, 20 Nov 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/almob/SchallerHLSWH23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/SchmidtA23,
author = {Sebastian S. Schmidt and
Jarno N. Alanko},
title = {Eulertigs: minimum plain text representation of k-mer sets without
repetitions in linear time},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {5},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00227-1},
doi = {10.1186/S13015-023-00227-1},
timestamp = {Fri, 21 Jul 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/almob/SchmidtA23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/ShenLWW23,
author = {Chengze Shen and
Baqiao Liu and
Kelly P. Williams and
Tandy J. Warnow},
title = {{EMMA:} a new method for computing multiple sequence alignments given
a constraint subset alignment},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {21},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00247-x},
doi = {10.1186/S13015-023-00247-X},
timestamp = {Thu, 21 Dec 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/almob/ShenLWW23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/almob/YaoLHS23,
author = {Hua{-}Ting Yao and
Ronny Lorenz and
Ivo L. Hofacker and
Peter F. Stadler},
title = {Mono-valent salt corrections for {RNA} secondary structures in the
ViennaRNA package},
journal = {Algorithms Mol. Biol.},
volume = {18},
number = {1},
pages = {8},
year = {2023},
url = {https://doi.org/10.1186/s13015-023-00236-0},
doi = {10.1186/S13015-023-00236-0},
timestamp = {Mon, 05 Feb 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/almob/YaoLHS23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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