Popping Superbubbles and Discovering Clumps: Recent Developments in Biological Sequence Analysis

DOI10.1007/978-3-319-30139-6_1OpenAlexW2483097382WikidataQ60315579 ScholiaQ60315579MaRDI QIDQ2803803

Fatima Vayani, Ritu Kundu, Manal Mohamed, Costas S. Iliopoulos

Publication date: 3 May 2016

Published in: WALCOM: Algorithms and Computation (Search for Journal in Brave)

Full work available at URL: https://doi.org/10.1007/978-3-319-30139-6_1

Mathematics Subject Classification ID

Protein sequences, DNA sequences (92D20) Computational methods for problems pertaining to biology (92-08) Algorithms on strings (68W32)

Uses Software

• ALLPATHS
• Velvet

Cites Work

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• \(k\)-abelian pattern matching
• Linear-time superbubble identification algorithm for genome assembly
• Suffix Arrays: A New Method for On-Line String Searches
• An Eulerian path approach to DNA fragment assembly
• Inducing the LCP-Array
• Circular Sequence Comparison with q-grams
• Algorithms on Strings
• Combinatorial Pattern Matching

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