Trycycler: consensus long-read assemblies for bacterial genomes
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Judd, LM
Cerdeira, LT
Hawkey, J
Méric, G
Vezina, B
Wyres, KL
Holt, KE
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Abstract
While long-read sequencing allows for the complete assembly of bacterial genomes, long-read assemblies contain a variety of errors. Here, we present Trycycler, a tool which produces a consensus assembly from multiple input assemblies of the same genome. Benchmarking showed that Trycycler assemblies contained fewer errors than assemblies constructed with a single tool. Post-assembly polishing further reduced errors and Trycycler+polishing assemblies were the most accurate genomes in our study. As Trycycler requires manual intervention, its output is not deterministic. However, we demonstrated that multiple users converge on similar assemblies that are consistently more accurate than those produced by automated assembly tools.
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Genome Biology
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22
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1
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© The Author(s). 2021 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made.
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Genome structure and regulation
Genetics
Environmental sciences
Biological sciences
Information and computing sciences
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Wick, RR; Judd, LM; Cerdeira, LT; Hawkey, J; Méric, G; Vezina, B; Wyres, KL; Holt, KE, Trycycler: consensus long-read assemblies for bacterial genomes, Genome Biology, 2021, 22 (1), pp. 266