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Found 89 Documents (Results 1–89)

Fast, flexible, and exact minimum flow decompositions via ILP. (English) Zbl 1496.92066

Pe’er, Itsik (ed.), Research in computational molecular biology. 26th annual international conference, RECOMB 2022, San Diego, CA, USA, May 22–25, 2022. Proceedings. Cham: Springer. Lect. Notes Comput. Sci. 13278, 230-245 (2022).
MSC:  92D20 90C10
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Safety and completeness in flow decompositions for RNA assembly. (English) Zbl 1494.92088

Pe’er, Itsik (ed.), Research in computational molecular biology. 26th annual international conference, RECOMB 2022, San Diego, CA, USA, May 22–25, 2022. Proceedings. Cham: Springer. Lect. Notes Comput. Sci. 13278, 177-192 (2022).
MSC:  92D20
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MetaCoAG: binning metagenomic contigs via composition, coverage and assembly graphs. (English) Zbl 1496.92071

Pe’er, Itsik (ed.), Research in computational molecular biology. 26th annual international conference, RECOMB 2022, San Diego, CA, USA, May 22–25, 2022. Proceedings. Cham: Springer. Lect. Notes Comput. Sci. 13278, 70-85 (2022).
MSC:  92D20 92-08
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Economic genome assembly from low coverage illumina and nanopore data. (English) Zbl 1518.92109

Kingsford, Carl (ed.) et al., 20th international workshop on algorithms in bioinformatics. WABI 2020, September 7–9, 2020, Pisa, Italy, virtual conference. Proceedings. Wadern: Schloss Dagstuhl – Leibniz Zentrum für Informatik. LIPIcs – Leibniz Int. Proc. Inform. 172, Article 10, 22 p. (2020).
MSC:  92D20 92D10 92-08
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Fast and efficient Rmap assembly using the bi-labelled de Bruijn graph. (English) Zbl 1518.92112

Kingsford, Carl (ed.) et al., 20th international workshop on algorithms in bioinformatics. WABI 2020, September 7–9, 2020, Pisa, Italy, virtual conference. Proceedings. Wadern: Schloss Dagstuhl – Leibniz Zentrum für Informatik. LIPIcs – Leibniz Int. Proc. Inform. 172, Article 9, 16 p. (2020).
MSC:  92D20 92D10 92-08
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Graphbin2: refined and overlapped binning of metagenomic contigs using assembly graphs. (English) Zbl 1518.92110

Kingsford, Carl (ed.) et al., 20th international workshop on algorithms in bioinformatics. WABI 2020, September 7–9, 2020, Pisa, Italy, virtual conference. Proceedings. Wadern: Schloss Dagstuhl – Leibniz Zentrum für Informatik. LIPIcs – Leibniz Int. Proc. Inform. 172, Article 8, 21 p. (2020).
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The longest run subsequence problem. (English) Zbl 1518.92115

Kingsford, Carl (ed.) et al., 20th international workshop on algorithms in bioinformatics. WABI 2020, September 7–9, 2020, Pisa, Italy, virtual conference. Proceedings. Wadern: Schloss Dagstuhl – Leibniz Zentrum für Informatik. LIPIcs – Leibniz Int. Proc. Inform. 172, Article 6, 13 p. (2020).
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Tile-based DNA nanostructures. Mathematical design and problem encoding. (English) Zbl 1409.92182

Robeva, Raina (ed.) et al., Algebraic and combinatorial computational biology. Amsterdam: Elsevier/Academic Press. Math. Sci. Eng., 35-60 (2019).
MSC:  92D20 05C90
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DNA-guided assembly of nanocellulose meshes. (English) Zbl 1522.68203

Fagan, David (ed.) et al., Theory and practice of natural computing. 7th international conference, TPNC 2018, Dublin, Ireland, December 12–14, 2018. Proceedings. Cham: Springer. Lect. Notes Comput. Sci. 11324, 253-265 (2018).
MSC:  68Q07 92D20
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GTED: graph traversal edit distance. (English) Zbl 1510.92087

Raphael, Benjamin J. (ed.), Research in computational molecular biology. 22nd annual international conference, RECOMB 2018, Paris, France, April 21–24, 2018. Proceedings. Cham: Springer. Lect. Notes Comput. Sci. 10812, 37-53 (2018).
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Kermit: guided long read assembly using coloured overlap graphs. (English) Zbl 1494.92091

Parida, Laxmi (ed.) et al., 18th international workshop on algorithms in bioinformatics, WABI 2018, Helsinki, Finland, August 20–22, 2018. Proceedings. Wadern: Schloss Dagstuhl – Leibniz Zentrum für Informatik. LIPIcs – Leibniz Int. Proc. Inform. 113, Article 11, 11 p. (2018).
MSC:  92D20 92-08
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Detecting mutations by eBWT. (English) Zbl 1494.92089

Parida, Laxmi (ed.) et al., 18th international workshop on algorithms in bioinformatics, WABI 2018, Helsinki, Finland, August 20–22, 2018. Proceedings. Wadern: Schloss Dagstuhl – Leibniz Zentrum für Informatik. LIPIcs – Leibniz Int. Proc. Inform. 113, Article 3, 15 p. (2018).
MSC:  92D20 92-08
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State complexity of overlap assembly. (English) Zbl 1458.68090

Câmpeanu, Cezar (ed.), Implementation and application of automata. 23rd international conference, CIAA 2018, Charlottetown, PE, Canada, July 30 – August 2, 2018. Proceedings. Cham: Springer. Lect. Notes Comput. Sci. 10977, 109-120 (2018).
MSC:  68Q45 92D20
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Algorithm engineering for all-pairs suffix-prefix matching. (English) Zbl 1432.68608

Iliopoulos, Costas S. (ed.) et al., 16th international symposium on experimental algorithms, SEA 2017, London, UK, June 21–23, 2017. Proceedings. Wadern: Schloss Dagstuhl – Leibniz Zentrum für Informatik. LIPIcs – Leibniz Int. Proc. Inform. 75, Article 14, 12 p. (2017).
MSC:  68W32 92-08 92D20
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Ideas about self assembly. (English) Zbl 1380.82010

Bowick, Mark J. (ed.) et al., Mathematics and materials. Lectures presented at the IAS/Park City Mathematics Institute (PCMI) Graduate Summer School, Park City, UT, USA, July 2014. Providence, RI: American Mathematical Society (AMS); Princeton, NJ: Institute for Advanced Study (IAS); Philadelphia, PA: Society for Industrial and Applied Mathematics (SIAM) (ISBN 978-1-4704-2919-5/hbk; 978-1-4704-3749-7/ebook). IAS/Park City Mathematics Series 23, 169-199 (2017).
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Bioinformatics. Volume I. Data, sequence analysis, and evolution. 2nd edition. (English) Zbl 1378.92002

Methods in Molecular Biology 1525. New York, NY: Humana Press/Springer (ISBN 978-1-4939-6620-2/hbk; 978-1-4939-6622-6/ebook). x, 491 p. (2017).
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Effective parallel multicore-optimized \(k\)-mers counting algorithm. (English) Zbl 1442.68279

Freivalds, Rūsiņš Mārtiņš (ed.) et al., SOFSEM 2016: theory and practice of computer science. 42nd international conference on current trends in theory and practice of computer science, Harrachov, Czech Republic, January 23–28, 2016. Proceedings. Berlin: Springer. Lect. Notes Comput. Sci. 9587, 469-477 (2016).
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One tile to rule them all: simulating any tile assembly system with a single universal tile. (English) Zbl 1410.68123

Esparza, Javier (ed.) et al., Automata, languages, and programming. 41st international colloquium, ICALP 2014, Copenhagen, Denmark, July 8–11, 2014. Proceedings, Part I. Berlin: Springer. Lect. Notes Comput. Sci. 8572, 368-379 (2014).
MSC:  68Q05 92D20
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Activatable tiles: Compact, robust programmable assembly and other applications. (English) Zbl 1137.68398

Garzon, Max H. (ed.) et al., DNA computing. 13th international meeting on DNA computing, DNA13, Memphis, TN, USA, June 4–8, 2007. Revised selected papers. Berlin: Springer (ISBN 978-3-540-77961-2/pbk). Lecture Notes in Computer Science 4848, 15-25 (2008).
MSC:  68Q10 68Q05 52C20 92C40 92D20
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