[Bioclusters] free parallel versions of BLAST

[Jason Stajich]

You may also try the BLAST.pm module of the MOLLUSC pkg.
http://wolfe.gen.tcd.ie/wrapper/
http://bioinformatics.oupjournals.org/cgi/content/abstract/19/3/441?maxtoshow=&HITS=10&hits=10&RESULTFORMAT=&author1=Wolfe+KH&andorexacttitle=and&andorexacttitleabs=and&andorexactfulltext=and&searchid=1077799877075_711&stored_search=&FIRSTINDEX=0&sortspec=relevance&journalcode=bioinfo

On Thu, 26 Feb 2004, Micha Bayer wrote:

> Hi,
>
> does anyone know of a non-commercial, open source/free package that
> provides a parallelisation of BLAST (apart from mpiBLAST which is not
> suitable for us).
>
> I am interested in something that would split input files into single
> query sequences, partition the database and collate the results (ideally
> with an adjustment of the e-values etc).
>
> It looks like some of the commercial packages like Paracel do all of the
> above but I really need an open source version and before I get writing
> my own I want to make sure I have tried all the available options.
>
> I am looking to run a service both on a Windows XP based Condor pool and
> on a cluster that uses OpenPBS but has no message passing capabilities
> to speak of.
>
> cheers
>
> Micha
>
>
>

--
Jason Stajich
Duke University
jason at cgt.mc.duke.edu