Sebastian Schmidt. Practical Omnitigs (Software, Source Code). Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)
@misc{dagstuhl-artifact-22465, title = {{Practical Omnitigs}}, author = {Schmidt, Sebastian}, note = {Software, swhId: \href{https://archive.softwareheritage.org/swh:1:rev:bb1de69873c6b48f183e51bca2f48d2a057b8b64;origin=https://github.com/algbio/practical-omnitigs;visit=swh:1:snp:04e6ac0423d201dfab2c8d8ebe834756a6f88de9}{\texttt{swh:1:rev:bb1de69873c6b48f183e51bca2f48d2a057b8b64}} (visited on 2024-11-28)}, url = {https://github.com/algbio/practical-omnitigs}, doi = {10.4230/artifacts.22465}, }
Published in: LIPIcs, Volume 312, 24th International Workshop on Algorithms in Bioinformatics (WABI 2024)
Sebastian Schmidt, Santeri Toivonen, Paul Medvedev, and Alexandru I. Tomescu. Applying the Safe-And-Complete Framework to Practical Genome Assembly. In 24th International Workshop on Algorithms in Bioinformatics (WABI 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 312, pp. 8:1-8:16, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)
@InProceedings{schmidt_et_al:LIPIcs.WABI.2024.8, author = {Schmidt, Sebastian and Toivonen, Santeri and Medvedev, Paul and Tomescu, Alexandru I.}, title = {{Applying the Safe-And-Complete Framework to Practical Genome Assembly}}, booktitle = {24th International Workshop on Algorithms in Bioinformatics (WABI 2024)}, pages = {8:1--8:16}, series = {Leibniz International Proceedings in Informatics (LIPIcs)}, ISBN = {978-3-95977-340-9}, ISSN = {1868-8969}, year = {2024}, volume = {312}, editor = {Pissis, Solon P. and Sung, Wing-Kin}, publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik}, address = {Dagstuhl, Germany}, URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.8}, URN = {urn:nbn:de:0030-drops-206520}, doi = {10.4230/LIPIcs.WABI.2024.8}, annote = {Keywords: Genome assembly, Omnitigs, Safe-and-complete framework, graph algorithm, HiFi sequencing data, Assembly evaluation} }
Published in: LIPIcs, Volume 254, 40th International Symposium on Theoretical Aspects of Computer Science (STACS 2023)
Massimo Cairo, Shahbaz Khan, Romeo Rizzi, Sebastian Schmidt, Alexandru I. Tomescu, and Elia C. Zirondelli. Cut Paths and Their Remainder Structure, with Applications. In 40th International Symposium on Theoretical Aspects of Computer Science (STACS 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 254, pp. 17:1-17:17, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)
@InProceedings{cairo_et_al:LIPIcs.STACS.2023.17, author = {Cairo, Massimo and Khan, Shahbaz and Rizzi, Romeo and Schmidt, Sebastian and Tomescu, Alexandru I. and Zirondelli, Elia C.}, title = {{Cut Paths and Their Remainder Structure, with Applications}}, booktitle = {40th International Symposium on Theoretical Aspects of Computer Science (STACS 2023)}, pages = {17:1--17:17}, series = {Leibniz International Proceedings in Informatics (LIPIcs)}, ISBN = {978-3-95977-266-2}, ISSN = {1868-8969}, year = {2023}, volume = {254}, editor = {Berenbrink, Petra and Bouyer, Patricia and Dawar, Anuj and Kant\'{e}, Mamadou Moustapha}, publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik}, address = {Dagstuhl, Germany}, URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.STACS.2023.17}, URN = {urn:nbn:de:0030-drops-176690}, doi = {10.4230/LIPIcs.STACS.2023.17}, annote = {Keywords: reachability, cut arc, strong bridge, covering walk, safety, persistence, essentiality, genome assembly} }
Published in: LIPIcs, Volume 242, 22nd International Workshop on Algorithms in Bioinformatics (WABI 2022)
Sebastian Schmidt and Jarno N. Alanko. Eulertigs: Minimum Plain Text Representation of k-mer Sets Without Repetitions in Linear Time. In 22nd International Workshop on Algorithms in Bioinformatics (WABI 2022). Leibniz International Proceedings in Informatics (LIPIcs), Volume 242, pp. 2:1-2:21, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2022)
@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.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} }
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