Zerg: a very fast BLAST parser library

Bioinformatics. 2003 May 22;19(8):1035-6. doi: 10.1093/bioinformatics/btg122.

Abstract

Summary: Zerg is a library of sub-routines that parses the output from all NCBI BLAST programs (Blastn, Blastp, Blastx, Tblastn and Tblastx) and returns the attributes of a BLAST report to the user. It is optimized for speed, being especially useful for large-scale genomic analysis. Benchmark tests show that Zerg is over two orders of magnitude faster than some widely used BLAST parsers.

Availability: http://bioinfo.iq.usp.br/zerg

Publication types

  • Comparative Study
  • Evaluation Study
  • Research Support, Non-U.S. Gov't
  • Validation Study

MeSH terms

  • Database Management Systems
  • Databases, Nucleic Acid*
  • National Library of Medicine (U.S.)
  • Sequence Alignment / methods*
  • Sequence Analysis, DNA / methods
  • Software*
  • United States
  • User-Computer Interface*