Bin 精炼工具：通过结合不同的 Bin 划分程序来改进基因组 Bin 划分。

Binning_refiner: improving genome bins through the combination of different binning programs.

机构信息

School of Biotechnology and Biomolecular Sciences, University of New South Wales, NSW, Australia.

Centre for Marine Bio-Innovation, University of New South Wales, NSW, Australia.

出版信息

Bioinformatics. 2017 Jun 15;33(12):1873-1875. doi: 10.1093/bioinformatics/btx086.

DOI:10.1093/bioinformatics/btx086

PMID:28186226

Abstract

SUMMARY

Microbial genomes have recently been reconstructed from metagenomic datasets using binning approaches. Inconsistent binning results are however often observed between different binning programs, likely due to the different algorithms or statistical models used. We present Binning_refiner, a pipeline that merges the results of different binning programs. Our results demonstrated that Binning_refiner can significantly reduce the contamination level of genome bins and increase the total size of contamination-free and 'good-quality' genome bins. Binning_refiner is thus an useful tool to improve the quality of genome bins derived from metagenomic data.

AVAILABILITY AND IMPLEMENTATION

Binning_refiner is implemented in Python3 and is freely available at: https://github.com/songweizhi/Binning_refiner .

CONTACT

songwz03@gmail.com or t.thomas@unsw.edu.au.

SUPPLEMENTARY INFORMATION

Supplementary data are available at Bioinformatics online.

摘要

最近，人们使用分箱方法从宏基因组数据集重建微生物基因组。然而，不同的分箱程序通常会得到不一致的分箱结果，这可能是由于使用了不同的算法或统计模型。我们提出了 Binning_refiner，这是一个可以合并不同分箱程序结果的流水线。我们的结果表明，Binning_refiner 可以显著降低基因组分箱的污染水平，并增加无污染物和“高质量”基因组分箱的总大小。因此，Binning_refiner 是一个有用的工具，可以提高从宏基因组数据中得到的基因组分箱的质量。