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NextDenovo: an efficient error correction and accurate assembly tool for noisy long reads

Hu, Jiang, Wang, Zhuo, Sun, Zongyi, Hu, Benxia, Ayoola, Adeola Oluwakemi, Liang, Fan, Li, Jingjing, Sandoval, José R., Cooper, David N., Ye, Kai, Ruan, Jue, Xiao, Chuan-Le, Wang, Depeng, Wu, Dong-Dong, Wang, Sheng·2024·Genome Biology
DOI 10.1186/s13059-024-03252-4PMC PMC11046930
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Abstract

Long-read sequencing data, particularly those derived from the Oxford Nanopore sequencing platform, tend to exhibit high error rates. Here, we present NextDenovo, an efficient error correction and assembly tool for noisy long reads, which achieves a high level of accuracy in genome assembly. We apply NextDenovo to assemble 35 diverse human genomes from around the world using Nanopore long-read data. These genomes allow us to identify the landscape of segmental duplication and gene copy number variation in modern human populations. The use of NextDenovo should pave the way for population-scale long-read assembly using Nanopore long-read data.

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Metadata

Authors
Hu, J., Wang, Z., Sun, Z., Hu, B., Ayoola, A. O., Liang, F., Li, J., Sandoval, J. R., Cooper, D. N., Ye, K., Ruan, J., Xiao, C.-L., Wang, D., Wu, D.-D., & Wang, S.
Venue
Genome Biology
Publisher
Springer Science and Business Media LLC
Published
2024-04-26
Volume
25
Issue
1
ISSN
1474-760X
DOI
10.1186/s13059-024-03252-4
PMC
PMC11046930
Cited by
431
References
8
Language
en
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