NextPolish: a fast and efficient genome polishing tool for long-read assembly

被引：683

作者：

Hu, Jiang ^{[1
]}

Fan, Junpeng ^{[1
]}

Sun, Zongyi ^{[1
]}

Liu, Shanlin ^{[1
]}

机构：

[1] GrandOm Biosci, Beijing 102200, Peoples R China

来源：

BIOINFORMATICS | 2020年 / 36卷 / 07期

关键词：

ALIGNMENT;

D O I：

10.1093/bioinformatics/btz891

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

Motivation: Although long-read sequencing technologies can produce genomes with long contiguity, they suffer from high error rates. Thus, we developed NextPolish, a tool that efficiently corrects sequence errors in genomes assembled with long reads. This new tool consists of two interlinked modules that are designed to score and count K-mers from high quality short reads, and to polish genome assemblies containing large numbers of base errors. Results: When evaluated for the speed and efficiency using human and a plant (Arabidopsis thaliana) genomes, NextPolish outperformed Pilon by correcting sequence errors faster, and with a higher correction accuracy.

引用

页码：2253 / 2255

页数：3

共 15 条

[11] Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement [J].