Searching for SNPs with cloud computing

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...

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Detalles Bibliográficos
Autores principales: Langmead, Ben, Schatz, Michael C, Lin, Jimmy, Pop, Mihai, Salzberg, Steven L
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2009
Materias:
Software
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3091327/
https://www.ncbi.nlm.nih.gov/pubmed/19930550
http://dx.doi.org/10.1186/gb-2009-10-11-r134
Descripción
Sumario: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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