Efficient assembly of nanopore reads via highly accurate and intact error correction

Nanopore reads have been advantageous for de novo genome assembly; however these reads have high error rates. Here, the authors develop an error correction and de novo assembly tool, NECAT, which produces efficient, high quality assemblies of nanopore reads.

Bibliographic Details
Main Authors: Ying Chen, Fan Nie, Shang-Qian Xie, Ying-Feng Zheng, Qi Dai, Thomas Bray, Yao-Xin Wang, Jian-Feng Xing, Zhi-Jian Huang, De-Peng Wang, Li-Juan He, Feng Luo, Jian-Xin Wang, Yi-Zhi Liu, Chuan-Le Xiao
Format: Article
Language:English
Published: Nature Publishing Group 2021-01-01
Series:Nature Communications
Online Access:https://doi.org/10.1038/s41467-020-20236-7
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spelling doaj-38b07015c4a4482d87dff528f09c3e092021-01-10T12:19:23ZengNature Publishing GroupNature Communications2041-17232021-01-0112111010.1038/s41467-020-20236-7Efficient assembly of nanopore reads via highly accurate and intact error correctionYing Chen0Fan Nie1Shang-Qian Xie2Ying-Feng Zheng3Qi Dai4Thomas Bray5Yao-Xin Wang6Jian-Feng Xing7Zhi-Jian Huang8De-Peng Wang9Li-Juan He10Feng Luo11Jian-Xin Wang12Yi-Zhi Liu13Chuan-Le Xiao14State Key Laboratory of Ophthalmology, Zhongshan Ophthalmic Center, Sun Yat-sen UniversitySchool of Information Science and Engineering, Central South UniversityKey Laboratory of Genetics and Germplasm Innovation of Tropical Special Forest Trees and Ornamental Plants, Ministry of Education, Hainan UniversityState Key Laboratory of Ophthalmology, Zhongshan Ophthalmic Center, Sun Yat-sen UniversityCollege of Life Sciences and Medicine, Zhejiang Sci-Tech UniversityOxford Nanopore TechnologiesCollege of Life Sciences and Medicine, Zhejiang Sci-Tech UniversityKey Laboratory of Genetics and Germplasm Innovation of Tropical Special Forest Trees and Ornamental Plants, Ministry of Education, Hainan UniversitySchool of Marine Sciences, Sun Yat-sen UniversityNextomics Biosciences Co., LtdState Key Laboratory of Ophthalmology, Zhongshan Ophthalmic Center, Sun Yat-sen UniversitySchool of Computing, Clemson UniversitySchool of Information Science and Engineering, Central South UniversityState Key Laboratory of Ophthalmology, Zhongshan Ophthalmic Center, Sun Yat-sen UniversityState Key Laboratory of Ophthalmology, Zhongshan Ophthalmic Center, Sun Yat-sen UniversityNanopore reads have been advantageous for de novo genome assembly; however these reads have high error rates. Here, the authors develop an error correction and de novo assembly tool, NECAT, which produces efficient, high quality assemblies of nanopore reads.https://doi.org/10.1038/s41467-020-20236-7
collection DOAJ
language English
format Article
sources DOAJ
author Ying Chen
Fan Nie
Shang-Qian Xie
Ying-Feng Zheng
Qi Dai
Thomas Bray
Yao-Xin Wang
Jian-Feng Xing
Zhi-Jian Huang
De-Peng Wang
Li-Juan He
Feng Luo
Jian-Xin Wang
Yi-Zhi Liu
Chuan-Le Xiao
spellingShingle Ying Chen
Fan Nie
Shang-Qian Xie
Ying-Feng Zheng
Qi Dai
Thomas Bray
Yao-Xin Wang
Jian-Feng Xing
Zhi-Jian Huang
De-Peng Wang
Li-Juan He
Feng Luo
Jian-Xin Wang
Yi-Zhi Liu
Chuan-Le Xiao
Efficient assembly of nanopore reads via highly accurate and intact error correction
Nature Communications
author_facet Ying Chen
Fan Nie
Shang-Qian Xie
Ying-Feng Zheng
Qi Dai
Thomas Bray
Yao-Xin Wang
Jian-Feng Xing
Zhi-Jian Huang
De-Peng Wang
Li-Juan He
Feng Luo
Jian-Xin Wang
Yi-Zhi Liu
Chuan-Le Xiao
author_sort Ying Chen
title Efficient assembly of nanopore reads via highly accurate and intact error correction
title_short Efficient assembly of nanopore reads via highly accurate and intact error correction
title_full Efficient assembly of nanopore reads via highly accurate and intact error correction
title_fullStr Efficient assembly of nanopore reads via highly accurate and intact error correction
title_full_unstemmed Efficient assembly of nanopore reads via highly accurate and intact error correction
title_sort efficient assembly of nanopore reads via highly accurate and intact error correction
publisher Nature Publishing Group
series Nature Communications
issn 2041-1723
publishDate 2021-01-01
description Nanopore reads have been advantageous for de novo genome assembly; however these reads have high error rates. Here, the authors develop an error correction and de novo assembly tool, NECAT, which produces efficient, high quality assemblies of nanopore reads.
url https://doi.org/10.1038/s41467-020-20236-7
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