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Genome-Scale Algorithm Design: Bioinformatics in the Era of High-Throughput Sequencing (2nd edition).

, , , and . Cambridge University Press, (2023)

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A safe and complete algorithm for metagenomic assembly., , and . Algorithms Mol. Biol., 13 (1): 3:1-3:12 (2018)A novel min-cost flow method for estimating transcript expression with RNA-Seq., , , and . BMC Bioinform., 14 (S-5): S15 (2013)Motif matching using gapped patterns., , , , and . CoRR, (2013)MetaFlow: Metagenomic Profiling Based on Whole-Genome Coverage Analysis with Min-Cost Flows., , and . RECOMB, volume 9649 of Lecture Notes in Computer Science, page 111-121. Springer, (2016)On using Longer RNA-seq Reads to Improve Transcript Prediction Accuracy., , , , and . BIOINFORMATICS, page 272-277. SciTePress, (2016)Genome Assembly, from Practice to Theory: Safe, Complete and Linear-Time., , , and . ACM Trans. Algorithms, 20 (1): 4:1-4:26 (January 2024)Perfect Phylogenies via Branchings in Acyclic Digraphs and a Generalization of Dilworth's Theorem., , , , and . ACM Trans. Algorithms, 14 (2): 20:1-20:26 (2018)Set Graphs. III. Proof Pearl: Claw-Free Graphs Mirrored into Transitive Hereditarily Finite Sets., and . J. Autom. Reason., 52 (1): 1-29 (2014)Infinity, in short., , and . J. Log. Comput., 22 (6): 1391-1403 (2012)Algorithms and Complexity on Indexing Founder Graphs., , , , , and . Algorithmica, 85 (6): 1586-1623 (June 2023)