Searching for SNPs with cloud computing.

Searching for SNPs with cloud computing.
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DOI:
10.1186/gb-2009-10-11-r134
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发表时间:
2009
期刊:
影响因子:
12.3
通讯作者:
Salzberg SL
Salzberg SL
中科院分区:
生物学1区
文献类型:
--
作者:
Langmead B;Schatz MC;Lin J;Pop M;Salzberg SL

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利用云计算技术的新型软件可在三个人类基因组中成本效益地对齐和映射SNP。 随着DNA测序超过计算机速度的改进,迫切需要加速诸如对齐和SNP调用之类的任务。 Crossbow是一种云计算软件工具,结合了Aligner Bowtie和SNP Caller SOAPSNP。 Crossbow并行执行,分析数据在三个小时内使用从云计算服务租用的320-CPU群集在三个小时内覆盖38倍的数据,价格约为85美元。 Crossbow可从http://bowtie-bio.sourceforge.net/crossbow/获得。
Novel software utilizing cloud computing technology to cost-effectively align and map SNPs from a human genome in three. As DNA sequencing outpaces improvements in computer speed, there is a critical need to accelerate tasks like alignment and SNP calling. Crossbow is a cloud-computing software tool that combines the aligner Bowtie and the SNP caller SOAPsnp. Executing in parallel using Hadoop, Crossbow analyzes data comprising 38-fold coverage of the human genome in three hours using a 320-CPU cluster rented from a cloud computing service for about $85. Crossbow is available from http://bowtie-bio.sourceforge.net/crossbow/.
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