[Bioperl-l] OffTopic: Test data for BLAST

[Marco Aurelio Valtas Cunha]

Lars,

  A very fun thing to do is find all Human ESTs on the chromosomes. It will load 
your cluster very well ( maybe too much ),

Get the EST data here:

ftp://ftp.ncbi.nih.gov/blast/db/est_human.Z

and the chromosome data here:

http://genome.ucsc.edu/goldenPath/28jun2002/bigZips/chromFa.zip

Off course that is a very long search, probably you will need to cut some ESTs off.

Best.
Marco.



Lars G. T. Jorgensen wrote:
> Does anyone know where I can download a large dataset and some
> test queries for Blast. I need it to investigate what needs NCBI BLAST
> has for memory bandwidth and cache size. As we are designing a cluster
> for the group.
> 
> The biggest I've got so far is ~120Mb database and some queries that
> are executed in about 0.60s. Not much fun...
> 

-- 
    _ _ _ _ _ Marco A Valtas Cunha     http://scarecrow.fmrp.usp.br/~mavcunha/
   /  '`    / Lab de Bioinformatica    http://bit.fmrp.usp.br
  /  '  `  /  Hemocentro de Rib Preto  http://ctc.fmrp.usp.br
/_ _`..'_/   Fax: 55 16 3963-9309     Tel: 55 16 3963-9300 R:9603