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{"title":"Installing, Maintaining, and Using a Local Copy of BLAST for Compute Cluster or Workstation Use","authors":"Istvan Ladunga","doi":"10.1002/cpbi.54","DOIUrl":null,"url":null,"abstract":"<p>The Basic Local Alignment Search Tool (BLAST) is the first resource to computationally characterize a novel amino acid or nucleic acid sequence. BLAST plays important roles in genomics, transcriptomics, and protein science. For numerous academic and commercial researchers, neither BLAST Web servers nor cloud resources satisfy the requirements of high-throughput comparative genomic pipelines or company policies. For such users, this unit describes how to install BLAST locally, either on a standalone workstation, or preferably on a compute cluster. We provide practical guidance for the planning and the installation under the LINUX, Windows, and Mac OS X operating systems. We propose strategies for downloading existing and generating new sequence databases in BLAST format. © 2018 by John Wiley & Sons, Inc.</p>","PeriodicalId":10958,"journal":{"name":"Current protocols in bioinformatics","volume":"63 1","pages":""},"PeriodicalIF":0.0000,"publicationDate":"2018-08-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1002/cpbi.54","citationCount":"2","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Current protocols in bioinformatics","FirstCategoryId":"1085","ListUrlMain":"https://onlinelibrary.wiley.com/doi/10.1002/cpbi.54","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"Biochemistry, Genetics and Molecular Biology","Score":null,"Total":0}
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Abstract
The Basic Local Alignment Search Tool (BLAST) is the first resource to computationally characterize a novel amino acid or nucleic acid sequence. BLAST plays important roles in genomics, transcriptomics, and protein science. For numerous academic and commercial researchers, neither BLAST Web servers nor cloud resources satisfy the requirements of high-throughput comparative genomic pipelines or company policies. For such users, this unit describes how to install BLAST locally, either on a standalone workstation, or preferably on a compute cluster. We provide practical guidance for the planning and the installation under the LINUX, Windows, and Mac OS X operating systems. We propose strategies for downloading existing and generating new sequence databases in BLAST format. © 2018 by John Wiley & Sons, Inc.
为计算集群或工作站安装、维护和使用BLAST的本地副本
基本局部比对搜索工具(BLAST)是计算表征一个新的氨基酸或核酸序列的第一个资源。BLAST在基因组学、转录组学和蛋白质科学中发挥着重要作用。对于许多学术和商业研究人员来说，BLAST Web服务器和云资源都不能满足高通量比较基因组管道或公司政策的要求。对于这样的用户，本单元描述了如何在本地安装BLAST，或者在独立工作站上，或者最好在计算集群上。我们为LINUX、Windows和Mac OS X操作系统下的规划和安装提供了实用指导。我们提出了以BLAST格式下载现有序列数据库和生成新序列数据库的策略。©2018 by John Wiley &儿子,Inc。
本文章由计算机程序翻译，如有差异，请以英文原文为准。
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