Scalable Nucleotide Alignment Program - http://snap.cs.berkeley.edu
SNAP is a fast and accurate aligner for short DNA reads. It is optimized for modern read lengths of 100 bases or higher, and takes advantage of these reads to align data quickly through a hash-based indexing scheme.
A quick start guide and user manual are available in the docs folder, with
additional documentation at http://snap.cs.berkeley.edu.
SNAP runs on Windows, Linux and Mac OS X. For Windows, we provide a Visual C++
project, snap.sln. For Linux and OS X, simply type make.