Article in Genome Biology: Searching for SNPs with cloud computing.
Dear all,
Here are an abstract and a link to an article in Genome Biology where free
software is used in a cloud to analyse human genetic polymorphisms:
Open AccessSoftware
Searching for SNPs with cloud computing
Ben Langmead email, Michael C Schatz email, Jimmy Lin email, Mihai Pop email
and Steven L Salzberg email
Genome Biology 2009, 10:R134doi:10.1186/gb-2009-10-11-r134
Published: 20 November 2009
Abstract (provisional)
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.sf.net/crossbow.
http://genomebiology.com/2009/10/11/R134
Have a nice day,
--
Charles Plessy
Debian Med packaging team,
http://www.debian.org/devel/debian-med
Tsurumi, Kanagawa, Japan
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