Published in: LIPIcs, Volume 273, 23rd International Workshop on Algorithms in Bioinformatics (WABI 2023)
Junyan Dai, Tobias Rubel, Yunheng Han, and Erin K. Molloy. Leveraging Constraints Plus Dynamic Programming for the Large Dollo Parsimony Problem. In 23rd International Workshop on Algorithms in Bioinformatics (WABI 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 273, pp. 5:1-5:23, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)
@InProceedings{dai_et_al:LIPIcs.WABI.2023.5, author = {Dai, Junyan and Rubel, Tobias and Han, Yunheng and Molloy, Erin K.}, title = {{Leveraging Constraints Plus Dynamic Programming for the Large Dollo Parsimony Problem}}, booktitle = {23rd International Workshop on Algorithms in Bioinformatics (WABI 2023)}, pages = {5:1--5:23}, series = {Leibniz International Proceedings in Informatics (LIPIcs)}, ISBN = {978-3-95977-294-5}, ISSN = {1868-8969}, year = {2023}, volume = {273}, editor = {Belazzougui, Djamal and Ouangraoua, A\"{i}da}, publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik}, address = {Dagstuhl, Germany}, URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2023.5}, URN = {urn:nbn:de:0030-drops-186312}, doi = {10.4230/LIPIcs.WABI.2023.5}, annote = {Keywords: phylogenetics, parsimony, Dollo, Camin-Sokal, dynamic programming, constraints} }
Published in: LIPIcs, Volume 273, 23rd International Workshop on Algorithms in Bioinformatics (WABI 2023)
Yunheng Han and Erin K. Molloy. Quartets Enable Statistically Consistent Estimation of Cell Lineage Trees Under an Unbiased Error and Missingness Model (Abstract). In 23rd International Workshop on Algorithms in Bioinformatics (WABI 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 273, pp. 8:1-8:2, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)
@InProceedings{han_et_al:LIPIcs.WABI.2023.8, author = {Han, Yunheng and Molloy, Erin K.}, title = {{Quartets Enable Statistically Consistent Estimation of Cell Lineage Trees Under an Unbiased Error and Missingness Model}}, booktitle = {23rd International Workshop on Algorithms in Bioinformatics (WABI 2023)}, pages = {8:1--8:2}, series = {Leibniz International Proceedings in Informatics (LIPIcs)}, ISBN = {978-3-95977-294-5}, ISSN = {1868-8969}, year = {2023}, volume = {273}, editor = {Belazzougui, Djamal and Ouangraoua, A\"{i}da}, publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik}, address = {Dagstuhl, Germany}, URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2023.8}, URN = {urn:nbn:de:0030-drops-186347}, doi = {10.4230/LIPIcs.WABI.2023.8}, annote = {Keywords: Tumor Phylogenetics, Cell Lineage Trees, Quartets, Supertrees, ASTRAL} }
Published in: LIPIcs, Volume 172, 20th International Workshop on Algorithms in Bioinformatics (WABI 2020)
Xilin Yu, Thien Le, Sarah Christensen, Erin K. Molloy, and Tandy Warnow. Advancing Divide-And-Conquer Phylogeny Estimation Using Robinson-Foulds Supertrees. In 20th International Workshop on Algorithms in Bioinformatics (WABI 2020). Leibniz International Proceedings in Informatics (LIPIcs), Volume 172, pp. 15:1-15:17, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2020)
@InProceedings{yu_et_al:LIPIcs.WABI.2020.15, author = {Yu, Xilin and Le, Thien and Christensen, Sarah and Molloy, Erin K. and Warnow, Tandy}, title = {{Advancing Divide-And-Conquer Phylogeny Estimation Using Robinson-Foulds Supertrees}}, booktitle = {20th International Workshop on Algorithms in Bioinformatics (WABI 2020)}, pages = {15:1--15:17}, series = {Leibniz International Proceedings in Informatics (LIPIcs)}, ISBN = {978-3-95977-161-0}, ISSN = {1868-8969}, year = {2020}, volume = {172}, editor = {Kingsford, Carl and Pisanti, Nadia}, publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik}, address = {Dagstuhl, Germany}, URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2020.15}, URN = {urn:nbn:de:0030-drops-128048}, doi = {10.4230/LIPIcs.WABI.2020.15}, annote = {Keywords: supertrees, divide-and-conquer, phylogeny estimation} }
Published in: LIPIcs, Volume 143, 19th International Workshop on Algorithms in Bioinformatics (WABI 2019)
Sarah Christensen, Erin K. Molloy, Pranjal Vachaspati, and Tandy Warnow. TRACTION: Fast Non-Parametric Improvement of Estimated Gene Trees. In 19th International Workshop on Algorithms in Bioinformatics (WABI 2019). Leibniz International Proceedings in Informatics (LIPIcs), Volume 143, pp. 4:1-4:16, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2019)
@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.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} }
Published in: LIPIcs, Volume 88, 17th International Workshop on Algorithms in Bioinformatics (WABI 2017)
Sarah Christensen, Erin K. Molloy, Pranjal Vachaspati, and Tandy Warnow. Optimal Completion of Incomplete Gene Trees in Polynomial Time Using OCTAL. In 17th International Workshop on Algorithms in Bioinformatics (WABI 2017). Leibniz International Proceedings in Informatics (LIPIcs), Volume 88, pp. 27:1-27:14, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2017)
@InProceedings{christensen_et_al:LIPIcs.WABI.2017.27, author = {Christensen, Sarah and Molloy, Erin K. and Vachaspati, Pranjal and Warnow, Tandy}, title = {{Optimal Completion of Incomplete Gene Trees in Polynomial Time Using OCTAL}}, booktitle = {17th International Workshop on Algorithms in Bioinformatics (WABI 2017)}, pages = {27:1--27:14}, series = {Leibniz International Proceedings in Informatics (LIPIcs)}, ISBN = {978-3-95977-050-7}, ISSN = {1868-8969}, year = {2017}, volume = {88}, editor = {Schwartz, Russell and Reinert, Knut}, publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik}, address = {Dagstuhl, Germany}, URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2017.27}, URN = {urn:nbn:de:0030-drops-76392}, doi = {10.4230/LIPIcs.WABI.2017.27}, annote = {Keywords: phylogenomics, missing data, coalescent-based species tree estimation, gene trees} }
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