| 引用本文: | 沈玉琳,金能智,孙一桐,者建武,马 尧.GPGPU加速生物序列比对研究进展[J].生物信息学,2013,11(2):115-119. |
| SHEN Yu-lin,JIN Neng-zhi,SUN Yi-tong,ZHE Jian-wu,MA Yao.Research progress of GPGPU accelerated biological sequence alignment[J].Chinese Journal of Bioinformatics,2013,11(2):115-119. |
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| 摘要: |
| 序列比对是生物信息学中最常用和最经典的研究手段。生物序列比对需要有强大计算能力的硬件支撑,而近年快速发展起来的GPGPU正好可堪此任。本文首先介绍GPGPU的发展过程,进而讲述GPGPU硬件设备与其编程环境,然后对GPGPU做科学计算时需要的数学库函数做一介绍,最后综述近年来国内外基于GPGPU的生物序列比对软件和相关研究工作,并总结和展望其辉煌前景。 |
| 关键词: GPGPU 序列比对 数学库函数 |
| DOI：10.3969/j.issn.1672-5565.2013-02.20130207 |
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| 基金项目:甘肃省重点实验室建设计划(NO. 1106RTSA021)；甘肃省2012年陇原青年创新人才扶持计划。 |
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| Research progress of GPGPU accelerated biological sequence alignment |
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SHEN Yu-lin, JIN Neng-zhi,SUN Yi-tong,ZHE Jian-wu,MA Yao
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(Key Laboratory of Cloud Computing of Gansu Province, Gansu Computing Center, Lanzhou 730030, China)
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| Abstract: |
| Biological sequence alignment is one of the most commonly used and the most classic method in bioinformatics study. It requires hardware support that has powerful computing capability, while the development of GPGPU may be worthy of this task. This paper first introduces the GPGPU development process, and then describes the GPGPU hardware device and related programming environment, presents math library function that is needed in scientific computing on GPGPU, finally, discusses the software and research work of using the GPGPU-accelerated biological sequence alignment at home and abroad in recent years. Furthermore, we will summarize the recent works and look into the brilliant prospects of GPGPU-accelerated biological sequence alignment. |
| Key words: GPGPU Sequence Alignment Math Library Function |
