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SNAP Sequence Aligner

SNAP is a new sequence aligner that is 10-100x faster and simultaneously more accurate than existing tools like BWA, Bowtie2 and SOAP2. It runs on commodity x86 processors, and supports a rich error model that lets it cheaply match reads with more differences from the reference than other tools. SNAP was developed by a team from the UC Berkeley AMP Lab, Microsoft, and UCSF. Binaries are available at

Bill Bolosky
Bill Bolosky