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© IRL Press

Scanning protein sequence databanks using a distributed processing workstation network

Geoffrey J. Barton

Laboratory of Molecular Biophysics, The Rex Richards Building South Parks Road, Oxford OX1 3QU, UK

The programme pscan has been developed to distribute protein databank scans over a network of computers that share a common filesystem. pscan may be used in conjunction with most conventional sequence comparison programmes with few modifications. In test runs using the Smith — Waterman dynamic programming algorithm, the time required to scan a 6858 sequence databank using a query sequence 740 residues long was reduced from ~50 min for a single processor, to ~11 minutes for five processors. Accordingly, pscan provides a low-cost, portable alternative to dedicated parallel processing computers.

Received on August 27, 1990; accepted on September 25, 1990

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Home page
 Nucleic Acids ResHome page
T. P. Walsh, C. Webber, S. Searle, S. S. Sturrock, and G. J. Barton
SCANPS: a web server for iterative protein sequence database searching by dynamic programing, with display in a hierarchical SCOP browser
Nucleic Acids Res., July 1, 2008; 36(suppl_2): W25 - W29.
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