[Bioperl-l] run megablast

Chris Fields cjfields at uiuc.edu
Sun Jul 22 23:53:48 EDT 2007


StandAloneBlast runs the megablast executable directly, though I  
think you can specify a MegaBlast search using blastall with the '-n'  
flag.

We could probably add this functionality in fairly easily since  
SearchIO can parse megablast output; no one's had the need to code it  
yet.

chris

On Jul 18, 2007, at 4:32 AM, Georg Otto wrote:

>
> Hi,
>
> is there a module to run megablast in a script (equivalent to ncbi
> blast in StandAloneBlast.pm)?
>
> Cheers,
>
> Georg
>
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Christopher Fields
Postdoctoral Researcher
Lab of Dr. Robert Switzer
Dept of Biochemistry
University of Illinois Urbana-Champaign





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