BLAST
From BioPerl
BLAST - Basic Local Alignment Search Tool blast90,blast98 - is one of the most widely used tools in modern bioinformatics. It provides fast identification of similar sequences in a database. The BLAST package for different operating systems can be downloaded at NCBI. See Wikipedia and Wikiomics entries for a good introduction.
In BioPerl, the BLAST application can be run using Bio::Tools::Run::StandAloneBlast, and output parsed using Bio::SearchIO.
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BLAST "flavors"
The original NCBI BLAST has inspired various clones, forks and off-shoots implementations - here are some of them:
- NCBI BLAST is distributed by the NCBI.
- The Application Formerly Known as WU BLAST was distributed by Warren Gish from Washington University. He has written:
AB-BLAST represents the future direction of WU-BLAST. For more information about the software, please see http://blast.advbiocomp.com/doc/README.html (email of 14 Oct 2009)
- mpiBLAST by Aaron Darling and collegues from http://mpiblast.lanl.gov/.
BLAST resources
Tutorials
- eTutorial: Basic local alignment search tool (BLAST)
Book
Also see the BLAST book by Ian Korf, Mark Yandell, and Joseph Bedell.
ISBN 0596002998
References
<biblio>
- blast90 pmid=2231712
- blast98 pmid=9254694
</biblio>
