@Proceedings{boucher_et_al:LIPIcs.WABI.2022,
title = {{LIPIcs, Volume 242, WABI 2022, Complete Volume}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {1--474},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022},
URN = {urn:nbn:de:0030-drops-170338},
doi = {10.4230/LIPIcs.WABI.2022},
annote = {Keywords: LIPIcs, Volume 242, WABI 2022, Complete Volume}
}
@InProceedings{boucher_et_al:LIPIcs.WABI.2022.0,
author = {Boucher, Christina and Rahmann, Sven},
title = {{Front Matter, Table of Contents, Preface, Conference Organization}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {0:i--0:xii},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.0},
URN = {urn:nbn:de:0030-drops-170347},
doi = {10.4230/LIPIcs.WABI.2022.0},
annote = {Keywords: Front Matter, Table of Contents, Preface, Conference Organization}
}
@InProceedings{salmela:LIPIcs.WABI.2022.1,
author = {Salmela, Leena},
title = {{Efficient Solutions to Biological Problems Using de Bruijn Graphs}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {1:1--1:2},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.1},
URN = {urn:nbn:de:0030-drops-170357},
doi = {10.4230/LIPIcs.WABI.2022.1},
annote = {Keywords: de Bruijn graph, variable order de Bruijn graph, genome assembly, sequencing error correction, k-mers}
}
@InProceedings{schmidt_et_al:LIPIcs.WABI.2022.2,
author = {Schmidt, Sebastian and Alanko, Jarno N.},
title = {{Eulertigs: Minimum Plain Text Representation of k-mer Sets Without Repetitions in Linear Time}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {2:1--2:21},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.2},
URN = {urn:nbn:de:0030-drops-170361},
doi = {10.4230/LIPIcs.WABI.2022.2},
annote = {Keywords: Spectrum preserving string sets, Eulerian cycle, Suffix tree, Bidirected arc-centric de Bruijn graph, k-mer based methods}
}
@InProceedings{lopezsanchez_et_al:LIPIcs.WABI.2022.3,
author = {L\'{o}pez S\'{a}nchez, Alitzel and Lafond, Manuel},
title = {{Predicting Horizontal Gene Transfers with Perfect Transfer Networks}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {3:1--3:22},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.3},
URN = {urn:nbn:de:0030-drops-170376},
doi = {10.4230/LIPIcs.WABI.2022.3},
annote = {Keywords: Horizontal gene transfer, tree-based networks, perfect phylogenies, character-based, gene-expression, indirect phylogenetic methods}
}
@InProceedings{sanaullah_et_al:LIPIcs.WABI.2022.4,
author = {Sanaullah, Ahsan and Zhi, Degui and Zhang, Shaoije},
title = {{Haplotype Threading Using the Positional Burrows-Wheeler Transform}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {4:1--4:14},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.4},
URN = {urn:nbn:de:0030-drops-170386},
doi = {10.4230/LIPIcs.WABI.2022.4},
annote = {Keywords: Substring Cover, PBWT, Haplotype Threading, Haplotype Matching}
}
@InProceedings{gascon_et_al:LIPIcs.WABI.2022.5,
author = {Gascon, Mathieu and El-Mabrouk, Nadia},
title = {{Non-Binary Tree Reconciliation with Endosymbiotic Gene Transfer}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {5:1--5:20},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.5},
URN = {urn:nbn:de:0030-drops-170390},
doi = {10.4230/LIPIcs.WABI.2022.5},
annote = {Keywords: Reconciliation, Duplication, Endosymbiotic gene transfer, Multifurcated gene tree, Polytomy}
}
@InProceedings{bonnet_et_al:LIPIcs.WABI.2022.6,
author = {Bonnet, Konstantinn and Marschall, Tobias and Doerr¹, Daniel},
title = {{Constructing Founder Sets Under Allelic and Non-Allelic Homologous Recombination}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {6:1--6:23},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.6},
URN = {urn:nbn:de:0030-drops-170403},
doi = {10.4230/LIPIcs.WABI.2022.6},
annote = {Keywords: founder set reconstruction, variation graph, pangenomics, NAHR, homologous recombination}
}
@InProceedings{marchand_et_al:LIPIcs.WABI.2022.7,
author = {Marchand, Bertrand and Will, Sebastian and Berkemer, Sarah J. and Bulteau, Laurent and Ponty, Yann},
title = {{Automated Design of Dynamic Programming Schemes for RNA Folding with Pseudoknots}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {7:1--7:24},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.7},
URN = {urn:nbn:de:0030-drops-170414},
doi = {10.4230/LIPIcs.WABI.2022.7},
annote = {Keywords: RNA folding, treewidth, dynamic programming}
}
@InProceedings{liu_et_al:LIPIcs.WABI.2022.8,
author = {Liu, Baqiao and Warnow, Tandy},
title = {{Fast and Accurate Species Trees from Weighted Internode Distances}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {8:1--8:24},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.8},
URN = {urn:nbn:de:0030-drops-170424},
doi = {10.4230/LIPIcs.WABI.2022.8},
annote = {Keywords: Species tree estimation, ASTRID, ASTRAL, multi-species coalescent, incomplete lineage sorting}
}
@InProceedings{pibiri:LIPIcs.WABI.2022.9,
author = {Pibiri, Giulio Ermanno},
title = {{On Weighted k-mer Dictionaries}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {9:1--9:20},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.9},
URN = {urn:nbn:de:0030-drops-170439},
doi = {10.4230/LIPIcs.WABI.2022.9},
annote = {Keywords: K-Mers, Weights, Compression, Hashing}
}
@InProceedings{suzuki_et_al:LIPIcs.WABI.2022.10,
author = {Suzuki, Yoshihiko and Myers, Gene},
title = {{Accurate k-mer Classification Using Read Profiles}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {10:1--10:20},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.10},
URN = {urn:nbn:de:0030-drops-170446},
doi = {10.4230/LIPIcs.WABI.2022.10},
annote = {Keywords: K-mer, K-mer count, K-mer classification, HiFi sequencing}
}
@InProceedings{ozery_et_al:LIPIcs.WABI.2022.11,
author = {Ozery, Eden and Zehavi, Meirav and Ziv-Ukelson, Michal},
title = {{New Algorithms for Structure Informed Genome Rearrangement}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {11:1--11:19},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.11},
URN = {urn:nbn:de:0030-drops-170454},
doi = {10.4230/LIPIcs.WABI.2022.11},
annote = {Keywords: PQ-tree, Gene Cluster, Breakpoint Distance}
}
@InProceedings{zentgraf_et_al:LIPIcs.WABI.2022.12,
author = {Zentgraf, Jens and Rahmann, Sven},
title = {{Fast Gapped k-mer Counting with Subdivided Multi-Way Bucketed Cuckoo Hash Tables}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {12:1--12:20},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.12},
URN = {urn:nbn:de:0030-drops-170467},
doi = {10.4230/LIPIcs.WABI.2022.12},
annote = {Keywords: gapped k-mer, k-mer, counting, Cuckoo hashing, parallelization}
}
@InProceedings{braga_et_al:LIPIcs.WABI.2022.13,
author = {Braga, Mar{\'\i}lia D. V. and Brockmann, Leonie R. and Klerx, Katharina and Stoye, Jens},
title = {{A Linear Time Algorithm for an Extended Version of the Breakpoint Double Distance}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {13:1--13:16},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.13},
URN = {urn:nbn:de:0030-drops-170472},
doi = {10.4230/LIPIcs.WABI.2022.13},
annote = {Keywords: Comparative genomics, genome rearrangement, breakpoint distance, double-cut-and-join (DCJ) distance, double distance}
}
@InProceedings{shibuya_et_al:LIPIcs.WABI.2022.14,
author = {Shibuya, Yoshihiro and Belazzougui, Djamal and Kucherov, Gregory},
title = {{Efficient Reconciliation of Genomic Datasets of High Similarity}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {14:1--14:14},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.14},
URN = {urn:nbn:de:0030-drops-170481},
doi = {10.4230/LIPIcs.WABI.2022.14},
annote = {Keywords: k-mers, sketching, Invertible Bloom Lookup Tables, IBLT, MinHash, syncmers, minimizers}
}
@InProceedings{wei_et_al:LIPIcs.WABI.2022.15,
author = {Wei, Wei and Koslicki, David},
title = {{WGSUniFrac: Applying UniFrac Metric to Whole Genome Shotgun Data}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {15:1--15:22},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.15},
URN = {urn:nbn:de:0030-drops-170494},
doi = {10.4230/LIPIcs.WABI.2022.15},
annote = {Keywords: UniFrac, beta-diversity, Whole Genome Shotgun, microbial community similarity}
}
@InProceedings{bernardini_et_al:LIPIcs.WABI.2022.16,
author = {Bernardini, Giulia and van Iersel, Leo and Julien, Esther and Stougie, Leen},
title = {{Reconstructing Phylogenetic Networks via Cherry Picking and Machine Learning}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {16:1--16:22},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.16},
URN = {urn:nbn:de:0030-drops-170507},
doi = {10.4230/LIPIcs.WABI.2022.16},
annote = {Keywords: Phylogenetics, Hybridization, Cherry Picking, Machine Learning, Heuristic}
}
@InProceedings{gibney_et_al:LIPIcs.WABI.2022.17,
author = {Gibney, Daniel and Thankachan, Sharma V. and Aluru, Srinivas},
title = {{Feasibility of Flow Decomposition with Subpath Constraints in Linear Time}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {17:1--17:16},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.17},
URN = {urn:nbn:de:0030-drops-170516},
doi = {10.4230/LIPIcs.WABI.2022.17},
annote = {Keywords: Flow networks, flow decomposition, subpath constraints}
}
@InProceedings{goga_et_al:LIPIcs.WABI.2022.18,
author = {Goga, Adri\'{a}n and Bal\'{a}\v{z}, Andrej},
title = {{Prefix-Free Parsing for Building Large Tunnelled Wheeler Graphs}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {18:1--18:12},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.18},
URN = {urn:nbn:de:0030-drops-170529},
doi = {10.4230/LIPIcs.WABI.2022.18},
annote = {Keywords: Wheeler graphs, BWT tunnelling, prefix-free parsing, pangenomic graphs}
}
@InProceedings{mun_et_al:LIPIcs.WABI.2022.19,
author = {Mun, Taher and Vaddadi, Naga Sai Kavya and Langmead, Ben},
title = {{Pangenomic Genotyping with the Marker Array}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {19:1--19:17},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.19},
URN = {urn:nbn:de:0030-drops-170530},
doi = {10.4230/LIPIcs.WABI.2022.19},
annote = {Keywords: Sequence alignment indexing genotyping}
}
@InProceedings{liptak_et_al:LIPIcs.WABI.2022.20,
author = {Lipt\'{a}k, Zsuzsanna and Masillo, Francesco and Puglisi, Simon J.},
title = {{Suffix Sorting via Matching Statistics}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {20:1--20:15},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.20},
URN = {urn:nbn:de:0030-drops-170545},
doi = {10.4230/LIPIcs.WABI.2022.20},
annote = {Keywords: Generalized suffix array, matching statistics, string collections, compressed representation, data structures, efficient algorithms}
}
@InProceedings{simonaitis_et_al:LIPIcs.WABI.2022.21,
author = {Simonaitis, Pijus and Raphael, Benjamin J.},
title = {{A Maximum Parsimony Principle for Multichromosomal Complex Genome Rearrangements}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {21:1--21:22},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.21},
URN = {urn:nbn:de:0030-drops-170552},
doi = {10.4230/LIPIcs.WABI.2022.21},
annote = {Keywords: Genome rearrangements, maximum parsimony, cancer evolution, chromothripsis, structural variation, affected chromosomes}
}
@InProceedings{chen_et_al:LIPIcs.WABI.2022.22,
author = {Chen, Ke and Shao, Mingfu},
title = {{Locality-Sensitive Bucketing Functions for the Edit Distance}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {22:1--22:14},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.22},
URN = {urn:nbn:de:0030-drops-170563},
doi = {10.4230/LIPIcs.WABI.2022.22},
annote = {Keywords: Locality-sensitive hashing, locality-sensitive bucketing, long reads, embedding}
}
@InProceedings{guerrini_et_al:LIPIcs.WABI.2022.23,
author = {Guerrini, Veronica and Conte, Alessio and Grossi, Roberto and Liti, Gianni and Rosone, Giovanna and Tattini, Lorenzo},
title = {{phyBWT: Alignment-Free Phylogeny via eBWT Positional Clustering}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {23:1--23:19},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.23},
URN = {urn:nbn:de:0030-drops-170577},
doi = {10.4230/LIPIcs.WABI.2022.23},
annote = {Keywords: Phylogeny, partition tree, BWT, positional cluster, alignment-free, reference-free, assembly-free}
}
@InProceedings{rubert_et_al:LIPIcs.WABI.2022.24,
author = {Rubert, Diego P. and Braga, Mar{\'\i}lia D. V.},
title = {{Gene Orthology Inference via Large-Scale Rearrangements for Partially Assembled Genomes}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {24:1--24:22},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.24},
URN = {urn:nbn:de:0030-drops-170586},
doi = {10.4230/LIPIcs.WABI.2022.24},
annote = {Keywords: Comparative genomics, double-cut-and-join, indels, gene orthology}
}
@InProceedings{agret_et_al:LIPIcs.WABI.2022.25,
author = {Agret, Cl\'{e}ment and Cazaux, Bastien and Limasset, Antoine},
title = {{Toward Optimal Fingerprint Indexing for Large Scale Genomics}},
booktitle = {22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)},
pages = {25:1--25:15},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-243-3},
ISSN = {1868-8969},
year = {2022},
volume = {242},
editor = {Boucher, Christina and Rahmann, Sven},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2022.25},
URN = {urn:nbn:de:0030-drops-170598},
doi = {10.4230/LIPIcs.WABI.2022.25},
annote = {Keywords: Data Structure, Indexation, Local Sensitive Hashing, Genomes, Databases}
}
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