[Bioclusters] mpiBLAST Performance

[Joe Landman]

On Wed, 2003-05-14 at 11:43, Jason D. Gans wrote:

> Also, while not a factor when blasting against the nr database, shuffling the 
> nt database yields a substantial speed increase in blast searches (I have obtained
> a 28% decrease in wall clock time for certain nucleotide queries).

I noted in 1999 and 2000 while working on GenomeCluster that a query
sequence "sort" or shuffle sometimes helped.  I didn't do that on the db
side due to the time costs of the operation.  Maybe worth a re-look.


-- 
Joseph Landman, Ph.D
Scalable Informatics LLC,
email: landman@scalableinformatics.com
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