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Scalable Nucleotide Alignment Program -- a fast and accurate read aligner for high-throughput sequencing data
C++ C Other

1.0beta.18: Major release, integrating 5 months of dev branch. Daemon…

… mode, better multiple output supoprt, perf/bug fixes, call fewer indels, etc.
latest commit b1e04413df
@bolosky bolosky authored


Scalable Nucleotide Alignment Program -


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


SNAP runs on Windows, Linux and Mac OS X.

For Windows, we provide a Visual C++ project, snap.sln. Requirements:

  • Visual Studio 2012 (11.0)

For Linux and OS X, simply type make. Requirements:

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