Searching for SNPs with cloud computing
Searching for SNPs with cloud computing
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Date
2009-11-20
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Citation
Langmead, B., Schatz, M.C., Lin, J. et al. Searching for SNPs with cloud computing. Genome Biol 10, R134 (2009).
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Abstract
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/ .