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

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ID: 298990
2019
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Abstract
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.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.NextPolish is implemented in C and Python. The source code is available from https://github.com/Nextomics/NextPolish.Supplementary data are available at Bioinformatics online.
Reference Key
openalex_W2991295831 Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors Jiang Hu, Junpeng Fan, Zongyi Sun, Shanlin Liu
Journal BMC Bioinformatics
Year 2019
DOI
10.1093/bioinformatics/btz891
URL
https://doi.org/10.1093/bioinformatics/btz891
Keywords Keywords not found

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