Literature DB >> 12584141

Wrapping up BLAST and other applications for use on Unix clusters.

Karsten Hokamp1, Denis C Shields, Kenneth H Wolfe, Daniel R Caffrey.   

Abstract

UNLABELLED: We have developed two programs that speed up common bioinformatic applications by spreading them across a UNIX cluster.(1) BLAST.pm, a new module for the 'MOLLUSC' package. (2) WRAPID, a simple tool for parallelizing large numbers of small instances of programs such as BLAST, FASTA and CLUSTALW. AVAILABILITY: The packages were developed in Perl on a 20-node Linux cluster and are provided together with a configuration script and documentation. They can be freely downloaded from http://wolfe.gen.tcd.ie/wrapper.

Mesh:

Year:  2003        PMID: 12584141     DOI: 10.1093/bioinformatics/btg007

Source DB:  PubMed          Journal:  Bioinformatics        ISSN: 1367-4803            Impact factor:   6.937


  2 in total

1.  PubCrawler: keeping up comfortably with PubMed and GenBank.

Authors:  Karsten Hokamp; Kenneth H Wolfe
Journal:  Nucleic Acids Res       Date:  2004-07-01       Impact factor: 16.971

2.  SS-Wrapper: a package of wrapper applications for similarity searches on Linux clusters.

Authors:  Chunlin Wang; Elliot J Lefkowitz
Journal:  BMC Bioinformatics       Date:  2004-10-28       Impact factor: 3.169

  2 in total

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