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Parallelizes the BLAST calculations by dynamically scheduling them across processors using a fault-resilient scheme. ScalaBLAST is designed to run a large number of queries against either large or small databases. It supports all 5 primary program types (blastn, blastp, tblastn, tblastx, and blastx) and several output formats (pairwise, tabular, or XML). ScalaBLAST will run on most multiprocessor systems that have Message Passing Interface (MPI) installed, and can run over a wide variety of interconnects including infiniband, quadrics, and ethernet.

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ScalaBlast classification

ScalaBlast specifications

Software type:
Restrictions to use:
GNU General Public License version 2.0
Command line interface
Operating system:
Unix/Linux, Mac OS, Windows
Computer skills:

ScalaBlast distribution


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ScalaBlast support



  • Christopher Oehmen <>


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Computational Sciences and Mathematics Division, Pacific Northwest National Laboratory, Richland, WA, USA

Funding source(s)

This work was supported through the Signature Discovery Initiative Laboratory Directed Research and Development program at Pacific Northwest National Laboratory (PNNL) under Contract DE-AC06-76RL01830 and by EMSL.

Link to literature

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