@Proceedings{huber_et_al:LIPIcs.WABI.2019,
title = {{LIPIcs, Volume 143, WABI'19, Complete Volume}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019},
URN = {urn:nbn:de:0030-drops-112994},
doi = {10.4230/LIPIcs.WABI.2019},
annote = {Keywords: Applied computing, Bioinformatics; Theory of computation, Design and analysis of algorithms; Mathematics of computing, Probabilistic inference problem}
}
@InProceedings{huber_et_al:LIPIcs.WABI.2019.0,
author = {Huber, Katharina T. and Gusfield, Dan},
title = {{Front Matter, Table of Contents, Preface, Conference Organization}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {0:i--0:xii},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.0},
URN = {urn:nbn:de:0030-drops-110307},
doi = {10.4230/LIPIcs.WABI.2019.0},
annote = {Keywords: Front Matter, Table of Contents, Preface, Conference Organization}
}
@InProceedings{jansson_et_al:LIPIcs.WABI.2019.1,
author = {Jansson, Jesper and Mampentzidis, Konstantinos and T. P., Sandhya},
title = {{Building a Small and Informative Phylogenetic Supertree}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {1:1--1:14},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.1},
URN = {urn:nbn:de:0030-drops-110316},
doi = {10.4230/LIPIcs.WABI.2019.1},
annote = {Keywords: phylogenetic tree, supertree, rooted triplet, approximation algorithm}
}
@InProceedings{wittler:LIPIcs.WABI.2019.2,
author = {Wittler, Roland},
title = {{Alignment- and Reference-Free Phylogenomics with Colored de Bruijn Graphs}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {2:1--2:14},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.2},
URN = {urn:nbn:de:0030-drops-110325},
doi = {10.4230/LIPIcs.WABI.2019.2},
annote = {Keywords: Phylogenomics, phylogenetics, phylogenetic splits, colored de Bruijn graphs}
}
@InProceedings{clement:LIPIcs.WABI.2019.3,
author = {Clement, Nathan L.},
title = {{Quantified Uncertainty of Flexible Protein-Protein Docking Algorithms}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {3:1--3:12},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.3},
URN = {urn:nbn:de:0030-drops-110335},
doi = {10.4230/LIPIcs.WABI.2019.3},
annote = {Keywords: protein-protein docking, uncertainty quantification, protein flexibility, low-discrepancy sampling, high-dimensional sampling}
}
@InProceedings{christensen_et_al:LIPIcs.WABI.2019.4,
author = {Christensen, Sarah and Molloy, Erin K. and Vachaspati, Pranjal and Warnow, Tandy},
title = {{TRACTION: Fast Non-Parametric Improvement of Estimated Gene Trees}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {4:1--4:16},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.4},
URN = {urn:nbn:de:0030-drops-110347},
doi = {10.4230/LIPIcs.WABI.2019.4},
annote = {Keywords: Gene tree correction, horizontal gene transfer, incomplete lineage sorting}
}
@InProceedings{yamada_et_al:LIPIcs.WABI.2019.5,
author = {Yamada, Kohei and Chen, Zhi-Zhong and Wang, Lusheng},
title = {{Better Practical Algorithms for rSPR Distance and Hybridization Number}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {5:1--5:12},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.5},
URN = {urn:nbn:de:0030-drops-110355},
doi = {10.4230/LIPIcs.WABI.2019.5},
annote = {Keywords: phylogenetic tree, fixed-parameter algorithms, approximation algorithms, Monte Carlo tree search}
}
@InProceedings{georgiev_et_al:LIPIcs.WABI.2019.6,
author = {Georgiev, Georgi D. and Dodd, Kevin F. and Chen, Brian Y.},
title = {{pClay: A Precise Parallel Algorithm for Comparing Molecular Surfaces}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {6:1--6:13},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.6},
URN = {urn:nbn:de:0030-drops-110365},
doi = {10.4230/LIPIcs.WABI.2019.6},
annote = {Keywords: Specificity Annotation, Structure Comparison, Cavity Analysis}
}
@InProceedings{vaddadi_et_al:LIPIcs.WABI.2019.7,
author = {Vaddadi, Kavya and Srinivasan, Rajgopal and Sivadasan, Naveen},
title = {{Read Mapping on Genome Variation Graphs}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {7:1--7:17},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.7},
URN = {urn:nbn:de:0030-drops-110375},
doi = {10.4230/LIPIcs.WABI.2019.7},
annote = {Keywords: read mapping, pangenome, genome variation graphs, locality sensitive hashing}
}
@InProceedings{alanko_et_al:LIPIcs.WABI.2019.8,
author = {Alanko, Jarno and Bannai, Hideo and Cazaux, Bastien and Peterlongo, Pierre and Stoye, Jens},
title = {{Finding All Maximal Perfect Haplotype Blocks in Linear Time}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {8:1--8:9},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.8},
URN = {urn:nbn:de:0030-drops-110388},
doi = {10.4230/LIPIcs.WABI.2019.8},
annote = {Keywords: Population genomics, selection coefficient, haplotype block, positional Burrows-Wheeler Transform}
}
@InProceedings{zoller_et_al:LIPIcs.WABI.2019.9,
author = {Zoller, Roni and Zehavi, Meirav and Ziv-Ukelson, Michal},
title = {{A New Paradigm for Identifying Reconciliation-Scenario Altering Mutations Conferring Environmental Adaptation}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {9:1--9:13},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.9},
URN = {urn:nbn:de:0030-drops-110398},
doi = {10.4230/LIPIcs.WABI.2019.9},
annote = {Keywords: Gene tree, Species tree, Reconciliation}
}
@InProceedings{liu_et_al:LIPIcs.WABI.2019.10,
author = {Liu, Jie and Huang, Yuanhao and Singh, Ritambhara and Vert, Jean-Philippe and Noble, William Stafford},
title = {{Jointly Embedding Multiple Single-Cell Omics Measurements}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {10:1--10:13},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.10},
URN = {urn:nbn:de:0030-drops-110401},
doi = {10.4230/LIPIcs.WABI.2019.10},
annote = {Keywords: Manifold alignment, single-cell sequencing}
}
@InProceedings{cauer_et_al:LIPIcs.WABI.2019.11,
author = {Cauer, Alexandra Gesine and Yard{\i}mc{\i}, G\"{u}rkan and Vert, Jean-Philippe and Varoquaux, Nelle and Noble, William Stafford},
title = {{Inferring Diploid 3D Chromatin Structures from Hi-C Data}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {11:1--11:13},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.11},
URN = {urn:nbn:de:0030-drops-110418},
doi = {10.4230/LIPIcs.WABI.2019.11},
annote = {Keywords: Genome 3D architecture, chromatin structure, Hi-C, 3D modeling}
}
@InProceedings{markin_et_al:LIPIcs.WABI.2019.12,
author = {Markin, Alexey and Eulenstein, Oliver},
title = {{Consensus Clusters in Robinson-Foulds Reticulation Networks}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {12:1--12:12},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.12},
URN = {urn:nbn:de:0030-drops-110420},
doi = {10.4230/LIPIcs.WABI.2019.12},
annote = {Keywords: Phylogenetics, phylogenetic tree, phylogenetic network, reticulation network, Robinson-Foulds, Pareto, RF-Net}
}
@InProceedings{simonaitis_et_al:LIPIcs.WABI.2019.13,
author = {Simonaitis, Pijus and Chateau, Annie and Swenson, Krister M.},
title = {{Weighted Minimum-Length Rearrangement Scenarios}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {13:1--13:17},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.13},
URN = {urn:nbn:de:0030-drops-110436},
doi = {10.4230/LIPIcs.WABI.2019.13},
annote = {Keywords: Weighted genome rearrangement, Double cut and join (DCJ), Edge switch, Minimum-weight quadrangulation}
}
@InProceedings{miladi_et_al:LIPIcs.WABI.2019.14,
author = {Miladi, Milad and Raden, Martin and Will, Sebastian and Backofen, Rolf},
title = {{Fast and Accurate Structure Probability Estimation for Simultaneous Alignment and Folding of RNAs}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {14:1--14:13},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.14},
URN = {urn:nbn:de:0030-drops-110446},
doi = {10.4230/LIPIcs.WABI.2019.14},
annote = {Keywords: RNA secondary structure, Structural bioinformatics, Alignment, Algorithms}
}
@InProceedings{xin_et_al:LIPIcs.WABI.2019.15,
author = {Xin, Hongyi and Shao, Mingfu and Kingsford, Carl},
title = {{Context-Aware Seeds for Read Mapping}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {15:1--15:13},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.15},
URN = {urn:nbn:de:0030-drops-110452},
doi = {10.4230/LIPIcs.WABI.2019.15},
annote = {Keywords: Read Mapping, Seed and Extend, Edit Distance, Suffix Trie}
}
@InProceedings{tiskin:LIPIcs.WABI.2019.16,
author = {Tiskin, Alexander},
title = {{Bounded-Length Smith-Waterman Alignment}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {16:1--16:12},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.16},
URN = {urn:nbn:de:0030-drops-110461},
doi = {10.4230/LIPIcs.WABI.2019.16},
annote = {Keywords: sequence alignment, local alignment, Smith, Waterman alignment, matrix searching}
}
@InProceedings{jain_et_al:LIPIcs.WABI.2019.17,
author = {Jain, Chirag and Zhang, Haowen and Dilthey, Alexander and Aluru, Srinivas},
title = {{Validating Paired-End Read Alignments in Sequence Graphs}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {17:1--17:13},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.17},
URN = {urn:nbn:de:0030-drops-110470},
doi = {10.4230/LIPIcs.WABI.2019.17},
annote = {Keywords: Sequence graphs, read mapping, index, sparse matrix-matrix multiplication}
}
@InProceedings{qiu_et_al:LIPIcs.WABI.2019.18,
author = {Qiu, Yutong and Ma, Cong and Xie, Han and Kingsford, Carl},
title = {{Detecting Transcriptomic Structural Variants in Heterogeneous Contexts via the Multiple Compatible Arrangements Problem}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {18:1--18:5},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.18},
URN = {urn:nbn:de:0030-drops-110483},
doi = {10.4230/LIPIcs.WABI.2019.18},
annote = {Keywords: transcriptomic structural variation, integer linear programming, heterogeneity}
}
@InProceedings{wang_et_al:LIPIcs.WABI.2019.19,
author = {Wang, Qi and Elworth, R. A. Leo and Liu, Tian Rui and Treangen, Todd J.},
title = {{Faster Pan-Genome Construction for Efficient Differentiation of Naturally Occurring and Engineered Plasmids with Plaster}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {19:1--19:12},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.19},
URN = {urn:nbn:de:0030-drops-110492},
doi = {10.4230/LIPIcs.WABI.2019.19},
annote = {Keywords: comparative genomics, sequence alignment, pan-genome, engineered plasmids}
}
@InProceedings{truszkowski_et_al:LIPIcs.WABI.2019.20,
author = {Truszkowski, Jakub and Gascuel, Olivier and Swenson, Krister M.},
title = {{Rapidly Computing the Phylogenetic Transfer Index}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {20:1--20:12},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.20},
URN = {urn:nbn:de:0030-drops-110505},
doi = {10.4230/LIPIcs.WABI.2019.20},
annote = {Keywords: large phylogenies, bootstrap analysis, tree comparison, data structures on trees}
}
@InProceedings{cao_et_al:LIPIcs.WABI.2019.21,
author = {Cao, Zhen and Zhu, Jiafan and Nakhleh, Luay},
title = {{Empirical Performance of Tree-Based Inference of Phylogenetic Networks}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {21:1--21:13},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.21},
URN = {urn:nbn:de:0030-drops-110510},
doi = {10.4230/LIPIcs.WABI.2019.21},
annote = {Keywords: Phylogenetic networks, species tree, tree-based networks, multi-locus phylogeny}
}
@InProceedings{edrisi_et_al:LIPIcs.WABI.2019.22,
author = {Edrisi, Mohammadamin and Zafar, Hamim and Nakhleh, Luay},
title = {{A Combinatorial Approach for Single-cell Variant Detection via Phylogenetic Inference}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {22:1--22:13},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.22},
URN = {urn:nbn:de:0030-drops-110525},
doi = {10.4230/LIPIcs.WABI.2019.22},
annote = {Keywords: Mutation calling, Single-cell sequencing, Integer linear programming, Perfect phylogeny}
}
@InProceedings{sauerwald_et_al:LIPIcs.WABI.2019.23,
author = {Sauerwald, Natalie and Shen, Yihang and Kingsford, Carl},
title = {{Topological Data Analysis Reveals Principles of Chromosome Structure in Cellular Differentiation}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {23:1--23:16},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.23},
URN = {urn:nbn:de:0030-drops-110537},
doi = {10.4230/LIPIcs.WABI.2019.23},
annote = {Keywords: topological data analysis, chromosome structure, Hi-C, topologically associating domains}
}
@InProceedings{polevikov_et_al:LIPIcs.WABI.2019.24,
author = {Polevikov, Evgeny and Kolmogorov, Mikhail},
title = {{Synteny Paths for Assembly Graphs Comparison}},
booktitle = {19th International Workshop on Algorithms in Bioinformatics (WABI 2019)},
pages = {24:1--24:14},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-123-8},
ISSN = {1868-8969},
year = {2019},
volume = {143},
editor = {Huber, Katharina T. and Gusfield, Dan},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2019.24},
URN = {urn:nbn:de:0030-drops-110545},
doi = {10.4230/LIPIcs.WABI.2019.24},
annote = {Keywords: Assembly graphs, Genome assembly, Synteny blocks, Comparative Genomics}
}
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