pp-Blast: a "pseudo-parallel" Blast
Braz. j. med. biol. res
;
36(4): 463-464, Apr. 2003. ilus, tab
Artículo
en Inglés
| LILACS
| ID: lil-331236
ABSTRACT
We have developed a software called pp-Blast that uses the publicly available Blast package and PVM (parallel virtual machine) to partition a multi-sequence query across a set of nodes with replicated or shared databases. Benchmark tests show that pp-Blast running in a cluster of 14 PCs outperformed conventional Blast running in large servers. In addition, using pp-Blast and the cluster we were able to map all human cDNAs onto the draft of the human genome in less than 6 days. We propose here that the cost/benefit ratio of pp-Blast makes it appropriate for large-scale sequence analysis. The source code and configuration files for pp-Blast are available at http//www.ludwig.org.br/biocomp/tools/pp-blast
Texto completo:
Disponible
Índice:
LILACS (Américas)
Asunto principal:
Sistemas de Administración de Bases de Datos
/
Interfaz Usuario-Computador
/
Genoma Humano
/
Internet
Límite:
Humanos
Idioma:
Inglés
Revista:
Braz. j. med. biol. res
Asunto de la revista:
Biologia
/
Medicina
Año:
2003
Tipo del documento:
Artículo
País de afiliación:
Brasil
Institución/País de afiliación:
Instituto Ludwig de Pesquisa sobre o Câncer/BR
/
Universidade de Santo Amaro/BR
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