| 引用本文: | 陈凤珍,李玲,操利超,严志祥.四种常用的生物序列比对软件比较[J].生物信息学,2016,14(1):56-60. |
| CHEN Fengzhen,LI Ling,CAO Lichao,YAN Zhixiang.Comparison of four common biological sequence alignment tools[J].Chinese Journal of Bioinformatics,2016,14(1):56-60. |
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| 摘要: |
| 随着高通量测序技术的快速发展,下一代测序技术也迅速发展为生物领域中的主流技术,而理解下一代测序数据最重要的一步是比对。比对是进行后续生物信息分析的基石,也因此催生了很多比对软件。本文主要选取了四种常用的比对软件Bowtie2、BWA、MAQ和SOAP2,对这四种软件及算法进行综述,并通过实际测序数据对四种软件进行比较和评估,为生物学研究者选择最佳的短序列比对软件提供理论和实践依据。 |
| 关键词: 下一代高通量测序 比对软件 生物信息 |
| DOI：10.3969/j.issn.1672-5565.2016.01.10 |
| 分类号:Q-31 |
| 文献标识码:A |
| 基金项目:国家自然科学基金资助项目(U1301252)。 |
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| Comparison of four common biological sequence alignment tools |
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CHEN Fengzhen, LI Ling, CAO Lichao,YAN Zhixiang
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( BGI-Shenzhen, Shenzhen 518083, China)
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| Abstract: |
| With the rapid development of high-throughput sequencing technology,Next-generation sequencing technology has rapidly developed into a mainstream technology in the biological field. Alignment is the key step in understanding the sequence data and also it is the cornerstone for bioinformatics analysis. And thus gave birth to a lot of alignment tools. In this paper, four common biological sequence alignment tools Bowtie2, BWA, MAQ and SOAP2 were selected to evaluate and compare using the whole genome sequencing data of HPV. And a comparison of four tools from many perspectives such as algorithm and suitable sequencing platforms was given. Hopefully the research can provide theoretical and practical basis for researchers to select the best biological sequence alignment tools. |
| Key words: Next generation sequencing Alignment tools Bioinformatics |
