Metagenomic reads binning with spaced seeds

DOI10.1016/J.TCS.2017.05.023zbMath1380.92018OpenAlexW2624845805MaRDI QIDQ1676311

Cinzia Pizzi, Samuele Girotto, Matteo Comin

Publication date: 6 November 2017

Published in: Theoretical Computer Science (Search for Journal in Brave)

Full work available at URL: https://doi.org/10.1016/j.tcs.2017.05.023

zbMATH Keywords

clusteringmetagenomicsspaced seeds

Mathematics Subject Classification ID

Biochemistry, molecular biology (92C40) Computational methods for problems pertaining to biology (92-08)

Related Items (2)

MetaProb ⋮ Fast Spaced Seed Hashing

Uses Software

• SHRiMP
• PatternHunter
• SpEED
• CLARK
• MetaSim
• ONE
• MetaCluster

Cites Work

• On the complexity of the spaced seeds
• Distributional regimes for the number of k -word matches between two random sequences

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