GNU PATTERN:基于SPLASH算法的开源生物序列模式识别程序  

GNU PATTERN:Open Source Pattern Hunter for Biological Sequences Based on SPLASH Algorithm

作　　者：许颖[1] 李亦学 孔祥银[1] 

机构地区：[1]中国科学院上海生命科学研究院上海第二医科大学健康科学中心中国科学院研究生院,上海200025 [2]Bioinformatics Center,Shanghai Institutes for Biological Sciences,Chinese Academy of Sciences,Shanghai

出　　处：《中国医学科学院学报》2005年第3期265-269,共5页Acta Academiae Medicinae Sinicae

基　　金：国家科技攻关课题(2002BA711A07)~~

摘　　要：目的获取IBMSPLASH算法核心代码,为进一步开展生物序列模式识别研究提供一个高效算法引擎。方法基于SPLASH算法开发核心代码,运用开源软件工具,开发、调试和优化程序。结果开发出GNUPattern(Gpat)程序,高效实现了SPLASH算法的核心部分,并提供全部源码,其他研究人员可以在GNU许可协议下修改该程序。结论Gpat成功地实现了SPLASH算法,并为下游生物序列模式识别研究提供铺垫。Objective To construct a high performance open source software engine based on IBM SPLASH algorithm for later research on pattern discovery. Methods Gpat, which is based on SPLASH algorithm, was developed by using open source software. Results GNU Pattern(Gpat)software was developped, which efficiently implemented the core part of SPLASH algorithm. Full source code of Gpat was also available for other researchers to modify the program under the GNU license. Conclusion Gpat is a successful implementation of SPLASH algorithm and can be used as a basic framework for later research on pattern recognition in biological sequences.

关 键 词：GNU PATFERN SPLASH算法 模式识别 

分 类 号：Q61[生物学—生物物理学]